HEADER CELL CYCLE 05-MAY-17 5XK4 TITLE RETRACTED STATE OF S65-PHOSPHORYLATED UBIQUITIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYUBIQUITIN-B; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-76; COMPND 5 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: UBB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI K-12; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 83333 KEYWDS PH-SENSITIVE UBIQUITIN CONFORMATIONAL SWITCH, CELL CYCLE EXPDTA SOLUTION NMR NUMMDL 30 AUTHOR X.DONG,Z.GONG,L.Y.QIN,M.L.RAN,C.L.ZHANG,K.LIU,Z.LIU,W.P.ZHANG,C.TANG REVDAT 4 16-OCT-24 5XK4 1 REMARK REVDAT 3 14-JUN-23 5XK4 1 REMARK REVDAT 2 12-JUL-17 5XK4 1 JRNL REVDAT 1 28-JUN-17 5XK4 0 JRNL AUTH X.DONG,Z.GONG,Y.B.LU,K.LIU,L.Y.QIN,M.L.RAN,C.L.ZHANG,Z.LIU, JRNL AUTH 2 W.P.ZHANG,C.TANG JRNL TITL UBIQUITIN S65 PHOSPHORYLATION ENGENDERS A PH-SENSITIVE JRNL TITL 2 CONFORMATIONAL SWITCH JRNL REF PROC. NATL. ACAD. SCI. V. 114 6770 2017 JRNL REF 2 U.S.A. JRNL REFN ESSN 1091-6490 JRNL PMID 28611216 JRNL DOI 10.1073/PNAS.1705718114 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5XK4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-MAY-17. REMARK 100 THE DEPOSITION ID IS D_1300003669. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : 150 REMARK 210 PRESSURE : 760 MMHG REMARK 210 SAMPLE CONTENTS : 0.8 MM [U-98% 13C; U-98% 15N] REMARK 210 PHOSPHORYLATED UBIQUITIN, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCA; 3D HNCACB; 3D 1H-13C REMARK 210 NOESY; 3D 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 850 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR NIH, CCPNMR REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 800 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 30 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 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: 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 PRO A 38 -12.37 -43.31 REMARK 500 1 ASP A 52 20.00 -62.34 REMARK 500 1 GLN A 62 48.05 -69.78 REMARK 500 1 SEP A 65 -146.60 -128.32 REMARK 500 2 PRO A 37 156.89 -46.83 REMARK 500 2 ASP A 52 14.69 -61.36 REMARK 500 2 GLN A 62 47.61 -68.77 REMARK 500 2 SEP A 65 -147.22 -128.33 REMARK 500 2 LEU A 67 43.34 -79.53 REMARK 500 3 ASP A 52 18.82 -62.56 REMARK 500 3 GLN A 62 47.55 -69.97 REMARK 500 3 SEP A 65 -146.88 -128.42 REMARK 500 4 PRO A 37 155.01 -47.18 REMARK 500 4 ASP A 52 26.93 -63.41 REMARK 500 4 GLN A 62 47.54 -70.07 REMARK 500 4 SEP A 65 -146.73 -128.47 REMARK 500 4 LEU A 67 45.49 -79.06 REMARK 500 5 ASP A 52 17.29 -62.17 REMARK 500 5 GLN A 62 45.16 -70.17 REMARK 500 5 SEP A 65 -147.35 -128.19 REMARK 500 5 LEU A 67 43.80 -79.93 REMARK 500 6 THR A 9 0.64 -69.10 REMARK 500 6 ASP A 52 31.56 -62.84 REMARK 500 6 GLN A 62 48.33 -69.14 REMARK 500 6 SEP A 65 -146.66 -128.20 REMARK 500 7 PRO A 37 154.68 -47.65 REMARK 500 7 ASP A 52 21.20 -63.05 REMARK 500 7 GLN A 62 46.84 -70.68 REMARK 500 7 SEP A 65 -148.68 -127.58 REMARK 500 7 LEU A 67 40.63 -79.89 REMARK 500 8 ASP A 52 17.99 -62.95 REMARK 500 8 GLN A 62 45.68 -70.62 REMARK 500 8 SEP A 65 -148.18 -127.27 REMARK 500 8 LEU A 67 37.77 -81.17 REMARK 500 9 ASP A 52 19.35 -62.82 REMARK 500 9 GLN A 62 47.12 -69.30 REMARK 500 9 SEP A 65 -147.41 -128.47 REMARK 500 9 LEU A 67 36.44 -79.96 REMARK 500 10 PRO A 38 -14.31 -42.99 REMARK 500 10 ASP A 52 22.23 -62.53 REMARK 500 10 GLN A 62 44.75 -72.84 REMARK 500 10 SEP A 65 -147.60 -127.61 REMARK 500 10 LEU A 67 38.09 -81.18 REMARK 500 11 PRO A 37 156.66 -46.71 REMARK 500 11 ASP A 52 27.85 -61.59 REMARK 500 11 GLN A 62 45.33 -71.25 REMARK 500 11 SEP A 65 -147.50 -128.76 REMARK 500 12 PRO A 37 157.53 -46.44 REMARK 500 12 ASP A 52 16.39 -61.53 REMARK 500 12 GLN A 62 45.14 -71.11 REMARK 500 REMARK 500 THIS ENTRY HAS 126 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 36081 RELATED DB: BMRB REMARK 900 UBIQUITIN S65 PHOSPHORYLATION ENGENDERS A PH-SENSITIVE REMARK 900 CONFORMATIONAL SWITCH DBREF 5XK4 A 1 76 UNP P0CG47 UBB_HUMAN 1 76 SEQRES 1 A 76 MET GLN ILE PHE VAL LYS THR LEU 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 ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 A 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SEP SEQRES 6 A 76 THR LEU HIS LEU VAL LEU ARG LEU ARG GLY GLY MODRES 5XK4 SEP A 65 SER MODIFIED RESIDUE HET SEP A 65 14 HETNAM SEP PHOSPHOSERINE HETSYN SEP PHOSPHONOSERINE FORMUL 1 SEP C3 H8 N O6 P HELIX 1 AA1 THR A 22 GLY A 35 1 14 HELIX 2 AA2 THR A 55 GLN A 62 1 8 SHEET 1 AA1 5 THR A 12 GLU A 16 0 SHEET 2 AA1 5 GLN A 2 LYS A 6 -1 N ILE A 3 O LEU A 15 SHEET 3 AA1 5 HIS A 68 LEU A 73 1 O LEU A 69 N LYS A 6 SHEET 4 AA1 5 GLN A 41 PHE A 45 -1 N ARG A 42 O ARG A 72 SHEET 5 AA1 5 LYS A 48 GLN A 49 -1 O LYS A 48 N PHE A 45 LINK C GLU A 64 N SEP A 65 1555 1555 1.33 LINK C SEP A 65 N THR A 66 1555 1555 1.34 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