HEADER SIGNALING PROTEIN 09-SEP-09 2KO3 TITLE NEDD8 SOLUTION STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEDD8; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: UBIQUITIN-LIKE PROTEIN NEDD8, NEDDYLIN, NEURAL PRECURSOR COMPND 5 CELL EXPRESSED DEVELOPMENTALLY DOWN-REGULATED PROTEIN 8, NEDD-8; COMPND 6 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: NEDD8; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET21A KEYWDS NEDD8, ISOPEPTIDE BOND, NUCLEUS, UBL CONJUGATION PATHWAY, SIGNALING KEYWDS 2 PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Y.S.CHOI,Y.H.JEON,C.CHEONG REVDAT 2 16-MAR-22 2KO3 1 REMARK REVDAT 1 03-NOV-09 2KO3 0 JRNL AUTH Y.S.CHOI,Y.H.JEON,K.S.RYU,C.CHEONG JRNL TITL 60TH RESIDUES OF UBIQUITIN AND NEDD8 ARE LOCATED OUT OF JRNL TITL 2 E2-BINDING SURFACES, BUT ARE IMPORTANT FOR K48 JRNL TITL 3 UBIQUITIN-LINKAGE. JRNL REF FEBS LETT. V. 583 3323 2009 JRNL REFN ISSN 0014-5793 JRNL PMID 19782077 JRNL DOI 10.1016/J.FEBSLET.2009.09.034 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KO3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-SEP-09. REMARK 100 THE DEPOSITION ID IS D_1000101360. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 200 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-100% 13C; U-100% 15N] REMARK 210 NEDD8-1, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D HNCA; 3D HN(CO)CA; 3D CBCA(CO) REMARK 210 NH; 3D HNCACB; 3D HBHA(CO)NH; 3D REMARK 210 H(CCO)NH; 3D HCCH-COSY; 3D HCCH- REMARK 210 TOCSY; 3D 1H-13C NOESY; 3D 1H- REMARK 210 15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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: 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 LYS A 60 35.09 37.41 REMARK 500 1 ALA A 72 118.67 -160.62 REMARK 500 1 ARG A 74 -168.83 -79.92 REMARK 500 2 LYS A 60 34.70 37.13 REMARK 500 2 ARG A 74 -53.64 -160.18 REMARK 500 3 LYS A 60 35.35 37.52 REMARK 500 4 LYS A 60 37.85 36.89 REMARK 500 4 LEU A 73 -72.47 -80.69 REMARK 500 5 LYS A 60 38.48 36.59 REMARK 500 5 ALA A 72 -165.76 -78.59 REMARK 500 6 LYS A 60 34.60 37.68 REMARK 500 6 ARG A 74 103.99 62.07 REMARK 500 7 LYS A 60 37.01 36.78 REMARK 500 7 LEU A 73 88.42 57.79 REMARK 500 8 LYS A 60 34.64 37.04 REMARK 500 8 LEU A 73 -42.38 -159.50 REMARK 500 9 LYS A 60 35.16 36.66 REMARK 500 9 ARG A 74 31.04 -159.96 REMARK 500 10 LYS A 60 34.91 36.72 REMARK 500 10 ARG A 74 92.68 58.01 REMARK 500 11 LYS A 60 39.74 36.47 REMARK 500 11 ILE A 61 99.80 -69.92 REMARK 500 11 LEU A 73 -172.56 55.40 REMARK 500 12 LYS A 60 35.24 36.94 REMARK 500 13 LYS A 60 36.68 36.78 REMARK 500 13 LEU A 73 -177.65 55.49 REMARK 500 13 ARG A 74 83.28 65.99 REMARK 500 14 LYS A 60 35.06 36.25 REMARK 500 14 ARG A 74 117.77 -160.09 REMARK 500 15 LYS A 60 34.13 37.49 REMARK 500 16 LYS A 60 37.04 36.78 REMARK 500 16 LEU A 73 37.17 -159.47 REMARK 500 17 LYS A 60 38.86 36.76 REMARK 500 18 LYS A 60 37.16 37.05 REMARK 500 18 ARG A 74 109.23 63.11 REMARK 500 19 LYS A 60 34.07 36.84 REMARK 500 20 LYS A 60 37.78 35.95 REMARK 500 REMARK 500 REMARK: NULL DBREF 2KO3 A 1 76 UNP Q15843 NEDD8_HUMAN 1 76 SEQRES 1 A 76 MET LEU ILE LYS VAL LYS THR LEU THR GLY LYS GLU ILE SEQRES 2 A 76 GLU ILE ASP ILE GLU PRO THR ASP LYS VAL GLU ARG ILE SEQRES 3 A 76 LYS GLU ARG VAL GLU GLU LYS GLU GLY ILE PRO PRO GLN SEQRES 4 A 76 GLN GLN ARG LEU ILE TYR SER GLY LYS GLN MET ASN ASP SEQRES 5 A 76 GLU LYS THR ALA ALA ASP TYR LYS ILE LEU GLY GLY SER SEQRES 6 A 76 VAL LEU HIS LEU VAL LEU ALA LEU ARG GLY GLY HELIX 1 1 LYS A 22 GLY A 35 1 14 HELIX 2 2 THR A 55 LYS A 60 5 6 SHEET 1 A 5 GLU A 12 ASP A 16 0 SHEET 2 A 5 LEU A 2 LYS A 6 -1 N VAL A 5 O ILE A 13 SHEET 3 A 5 VAL A 66 LEU A 71 1 O LEU A 67 N LYS A 6 SHEET 4 A 5 GLN A 41 TYR A 45 -1 N ILE A 44 O HIS A 68 SHEET 5 A 5 LYS A 48 GLN A 49 -1 O LYS A 48 N TYR A 45 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