HEADER CYTOSOLIC PROTEIN 22-FEB-18 5ZD0 TITLE SOLUTION STRUCTURE OF HUMAN UBIQUITIN WITH THREE ALANINE MUTATIONS IN TITLE 2 LIVING EUKARYOTIC CELLS BY IN-CELL NMR SPECTROSCOPY COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: UBB; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS REGULATORY PROTEIN, UBIQUITINATION, CYTOSOLIC PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.TANAKA,T.IKEYA,H.KAMOSHIDA,M.MISHIMA,M.SHIRAKAWA,P.GUENTERT,Y.ITO REVDAT 3 29-MAY-24 5ZD0 1 REMARK REVDAT 2 14-JUN-23 5ZD0 1 REMARK REVDAT 1 21-AUG-19 5ZD0 0 JRNL AUTH T.TANAKA,T.IKEYA,H.KAMOSHIDA,Y.SUEMOTO,M.MISHIMA, JRNL AUTH 2 M.SHIRAKAWA,P.GUNTERT,Y.ITO JRNL TITL HIGH-RESOLUTION PROTEIN 3D STRUCTURE DETERMINATION IN LIVING JRNL TITL 2 EUKARYOTIC CELLS. JRNL REF ANGEW.CHEM.INT.ED.ENGL. V. 58 7284 2019 JRNL REFN ESSN 1521-3773 JRNL PMID 30938016 JRNL DOI 10.1002/ANIE.201900840 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : OPAL 1.4 REMARK 3 AUTHORS : LUGINBUHL, GUNTERT, BILLETER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5ZD0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-FEB-18. REMARK 100 THE DEPOSITION ID IS D_1300006871. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300; 300 REMARK 210 PH : 0; 0 REMARK 210 IONIC STRENGTH : 0; 0 REMARK 210 PRESSURE : AMBIENT ATM; AMBIENT ATM REMARK 210 SAMPLE CONTENTS : 50 UM [U-100% 13C; U-100% 15N] REMARK 210 HUMAN UBIQUITIN WITH THREE REMARK 210 ALANINE MUTATIONS 1, 50 UM [U- REMARK 210 100% 15N] HUMAN UBIQUITIN WITH REMARK 210 THREE ALANINE MUTATIONS 2, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N SOFAST-HMQC; 2D 1H-13C REMARK 210 HSQC; 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : AZARA 2.8.1, CYANA 3.98, CCPNMR REMARK 210 ANALYSIS 2.4.2, TOPSPIN REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 4400 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 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: MONOMERIC 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 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 THR A 22 157.21 77.39 REMARK 500 1 ASP A 39 -39.23 73.57 REMARK 500 1 TYR A 59 -72.40 -81.12 REMARK 500 1 ASN A 60 -25.84 -149.98 REMARK 500 2 THR A 22 152.86 75.17 REMARK 500 2 ASP A 39 -46.78 72.11 REMARK 500 2 ALA A 46 19.97 54.10 REMARK 500 2 TYR A 59 -74.43 -80.09 REMARK 500 2 ASN A 60 -24.49 -153.29 REMARK 500 3 THR A 22 151.69 74.18 REMARK 500 3 ASP A 39 -45.45 71.24 REMARK 500 3 ALA A 46 19.15 55.76 REMARK 500 3 TYR A 59 -71.45 -75.73 REMARK 500 3 ASN A 60 -24.15 -156.17 REMARK 500 4 THR A 22 150.99 77.06 REMARK 500 4 ASP A 39 -39.81 70.58 REMARK 500 4 ALA A 46 19.79 55.42 REMARK 500 4 TYR A 59 -75.15 -82.51 REMARK 500 4 ASN A 60 -24.33 -152.17 REMARK 500 5 THR A 22 154.75 77.18 REMARK 500 5 LYS A 33 -61.94 -94.75 REMARK 500 5 ASP A 39 -47.23 73.35 REMARK 500 5 ALA A 46 19.62 54.68 REMARK 500 5 TYR A 59 -72.76 -72.86 REMARK 500 5 ASN A 60 -25.36 -156.80 REMARK 500 6 THR A 22 154.05 76.75 REMARK 500 6 ASP A 39 -48.94 73.02 REMARK 500 6 ASN A 60 -27.24 -154.96 REMARK 500 7 THR A 22 158.25 77.91 REMARK 500 7 ASP A 39 -42.68 71.99 REMARK 500 7 TYR A 59 -72.80 -77.85 REMARK 500 7 ASN A 60 -26.63 -150.61 REMARK 500 8 THR A 22 153.98 78.54 REMARK 500 8 LYS A 33 -60.51 -92.05 REMARK 500 8 ASP A 39 -38.89 72.33 REMARK 500 8 TYR A 59 -73.06 -73.10 REMARK 500 8 ASN A 60 -23.35 -154.19 REMARK 500 9 THR A 22 161.69 78.91 REMARK 500 9 ASP A 39 -52.60 73.54 REMARK 500 9 TYR A 59 -72.19 -82.67 REMARK 500 9 ASN A 60 -26.08 -148.74 REMARK 500 10 THR A 22 161.12 78.86 REMARK 500 10 ASP A 39 -43.55 71.99 REMARK 500 10 ALA A 46 19.38 53.66 REMARK 500 10 ASN A 60 -24.25 -158.65 REMARK 500 11 THR A 22 161.86 76.70 REMARK 500 11 ASP A 39 -43.81 71.48 REMARK 500 11 ALA A 46 18.65 54.56 REMARK 500 11 TYR A 59 -71.97 -82.23 REMARK 500 11 ASN A 60 -23.63 -154.22 REMARK 500 REMARK 500 THIS ENTRY HAS 93 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 27356 RELATED DB: BMRB DBREF 5ZD0 A 1 76 UNP P0CG47 UBB_HUMAN 1 76 SEQADV 5ZD0 ALA A 8 UNP P0CG47 LEU 8 ENGINEERED MUTATION SEQADV 5ZD0 ALA A 44 UNP P0CG47 ILE 44 ENGINEERED MUTATION SEQADV 5ZD0 ALA A 70 UNP P0CG47 VAL 70 ENGINEERED MUTATION SEQRES 1 A 76 MET GLN ILE PHE VAL LYS THR ALA THR GLY LYS THR ILE SEQRES 2 A 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 A 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 A 76 GLN GLN ARG LEU ALA PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 A 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 A 76 THR LEU HIS LEU ALA LEU ARG LEU ARG GLY GLY HELIX 1 AA1 THR A 22 ASP A 32 1 11 HELIX 2 AA2 THR A 55 ASN A 60 1 6 SHEET 1 AA1 5 THR A 12 LEU A 15 0 SHEET 2 AA1 5 ILE A 3 LYS A 6 -1 N ILE A 3 O LEU A 15 SHEET 3 AA1 5 THR A 66 ALA A 70 1 O LEU A 67 N PHE A 4 SHEET 4 AA1 5 ARG A 42 PHE A 45 -1 N ALA A 44 O HIS A 68 SHEET 5 AA1 5 LYS A 48 GLN A 49 -1 O LYS A 48 N PHE A 45 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 MODEL 1