HEADER SIGNALING PROTEIN 23-JUN-04 1TTN TITLE SOLUTION STRUCTURE OF THE UBIQUITIN-LIKE DOMAIN OF HUMAN DC-UBP FROM TITLE 2 DENDRITIC CELLS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DENDRITIC CELL-DERIVED UBIQUITIN-LIKE PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UBIQUITIN-LIKE DOMAIN; COMPND 5 SYNONYM: DC-UBP; 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-22B(+) KEYWDS UBIQUITIN-LIKE DOMAIN, DC-UBP, SOLUTION STRUCTURE, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 15 MDLTYP MINIMIZED AVERAGE AUTHOR H.Y.HU REVDAT 4 02-MAR-22 1TTN 1 REMARK REVDAT 3 24-FEB-09 1TTN 1 VERSN REVDAT 2 16-AUG-05 1TTN 1 JRNL REVDAT 1 05-JUL-05 1TTN 0 JRNL AUTH Y.G.GAO,A.X.SONG,Y.H.SHI,Y.G.CHANG,S.X.LIU,Y.Z.YU,X.T.CAO, JRNL AUTH 2 D.H.LIN,H.Y.HU JRNL TITL SOLUTION STRUCTURE OF THE UBIQUITIN-LIKE DOMAIN OF HUMAN JRNL TITL 2 DC-UBP FROM DENDRITIC CELLS JRNL REF PROTEIN SCI. V. 14 2044 2005 JRNL REFN ISSN 0961-8368 JRNL PMID 15987890 JRNL DOI 10.1110/PS.051455505 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR, CNS 1.1, ARIA 1.2 REMARK 3 AUTHORS : VARIAN (XWINNMR), A.T.BRUNGER ET AL. (CNS), JENS REMARK 3 LINGE ET AL. (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON 901 NOE REMARK 3 -DERIVED DISTANCE CONSTRAINTS,83 DIHEDRAL ANGLE RESTRAINTS,60 REMARK 3 DISTANCE RESTRAINTS FROM HYDROGEN BONDS. REMARK 4 REMARK 4 1TTN COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-JUN-04. REMARK 100 THE DEPOSITION ID IS D_1000022892. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.6 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : 1.2MM UBIQUITIN-LIKE DOMAIN OF REMARK 210 DC-UBP ,10MM NAAC, 100MM NACL, REMARK 210 5MM DTT, 0.02% SODIUM AZIDE; REMARK 210 1.2MM UBIQUITIN-LIKE DOMAIN OF REMARK 210 DC-UBP ,10MM NAAC, 100MM NACL, REMARK 210 5MM DTT, 0.02% SODIUM AZIDE REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; HNHA REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, NMRVIEW 5.0 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 150 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 15 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 15 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-15 REMARK 465 RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ILE A 2 REMARK 465 GLU A 3 REMARK 465 GLU A 4 REMARK 465 LYS A 5 REMARK 465 SER A 6 REMARK 465 ASP A 7 REMARK 465 ILE A 8 REMARK 465 GLU A 9 REMARK 465 THR A 10 REMARK 465 LEU A 11 REMARK 465 ASP A 12 REMARK 465 ILE A 13 REMARK 465 PRO A 14 REMARK 465 GLU A 15 REMARK 465 PRO A 16 REMARK 465 PRO A 17 REMARK 465 PRO A 18 REMARK 465 ASN A 19 REMARK 465 SER A 20 REMARK 465 PRO A 101 REMARK 465 THR A 102 REMARK 465 PRO A 103 REMARK 465 VAL A 104 REMARK 465 GLU A 105 REMARK 465 ASN A 106 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 O ARG A 41 H THR A 43 1.39 REMARK 500 O LEU A 30 H GLY A 33 1.54 REMARK 500 O ARG A 41 N THR A 43 2.04 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 TYR A 22 -61.43 -101.30 REMARK 500 1 SER A 31 7.97 48.36 REMARK 500 1 THR A 32 15.67 81.72 REMARK 500 1 LYS A 34 79.89 -117.93 REMARK 500 1 SER A 42 -47.95 29.05 REMARK 500 1 ASP A 44 -75.07 -80.35 REMARK 500 1 THR A 45 157.77 57.81 REMARK 500 1 VAL A 46 -31.95 -29.26 REMARK 500 1 PHE A 47 -70.04 -65.73 REMARK 500 1 PRO A 61 -152.45 -68.54 REMARK 500 1 GLN A 64 69.66 -107.26 REMARK 500 1 LYS A 76 31.70 -147.58 REMARK 500 1 GLU A 81 -65.60 -91.97 REMARK 500 1 LEU A 82 -7.01 70.05 REMARK 500 1 ILE A 84 61.98 -110.02 REMARK 500 1 LYS A 86 -36.40 178.33 REMARK 500 1 VAL A 98 25.66 -148.90 REMARK 500 1 GLN A 99 155.76 60.78 REMARK 500 2 TYR A 22 40.75 -96.15 REMARK 500 2 SER A 42 -47.80 42.75 REMARK 500 2 THR A 45 170.77 -48.12 REMARK 500 2 VAL A 46 -28.18 -34.31 REMARK 500 2 LYS A 78 -70.77 -57.16 REMARK 500 2 GLU A 81 -63.76 -92.12 REMARK 500 2 LEU A 82 -3.37 70.18 REMARK 500 2 LYS A 86 16.15 -158.95 REMARK 500 3 SER A 31 -55.68 57.24 REMARK 500 3 THR A 32 28.97 170.80 REMARK 500 3 SER A 42 -48.18 30.74 REMARK 500 3 ASP A 44 -77.15 -88.34 REMARK 500 3 THR A 45 156.11 59.19 REMARK 500 3 VAL A 46 -33.04 -27.93 REMARK 500 3 LYS A 78 -70.37 -57.24 REMARK 500 3 LEU A 82 -36.20 78.77 REMARK 500 3 PRO A 85 49.46 -85.87 REMARK 500 3 LYS A 86 -79.83 -151.51 REMARK 500 3 VAL A 98 -47.22 -139.82 REMARK 500 4 TYR A 22 -47.23 -147.45 REMARK 500 4 GLU A 23 -67.89 -102.87 REMARK 500 4 SER A 42 -48.16 34.44 REMARK 500 4 ASP A 44 -77.85 -75.82 REMARK 500 4 THR A 45 156.89 59.00 REMARK 500 4 VAL A 46 -34.31 -27.01 REMARK 500 4 PHE A 47 -70.01 -62.79 REMARK 500 4 PRO A 61 -153.86 -59.37 REMARK 500 4 LYS A 76 37.21 -156.09 REMARK 500 4 LEU A 82 -14.10 74.15 REMARK 500 4 PRO A 85 60.54 -69.94 REMARK 500 4 LYS A 86 -89.37 -166.80 REMARK 500 4 SER A 95 52.88 -146.19 REMARK 500 REMARK 500 THIS ENTRY HAS 194 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1TTN A 1 106 UNP Q8WUN7 Q8WUN7_HUMAN 85 190 SEQRES 1 A 106 MET ILE GLU GLU LYS SER ASP ILE GLU THR LEU ASP ILE SEQRES 2 A 106 PRO GLU PRO PRO PRO ASN SER GLY TYR GLU CYS GLN LEU SEQRES 3 A 106 ARG LEU ARG LEU SER THR GLY LYS ASP LEU LYS LEU VAL SEQRES 4 A 106 VAL ARG SER THR ASP THR VAL PHE HIS MET LYS ARG ARG SEQRES 5 A 106 LEU HIS ALA ALA GLU GLY VAL GLU PRO GLY SER GLN ARG SEQRES 6 A 106 TRP PHE PHE SER GLY ARG PRO LEU THR ASP LYS MET LYS SEQRES 7 A 106 PHE GLU GLU LEU LYS ILE PRO LYS ASP TYR VAL VAL GLN SEQRES 8 A 106 VAL ILE VAL SER GLN PRO VAL GLN ASN PRO THR PRO VAL SEQRES 9 A 106 GLU ASN HELIX 1 1 ASP A 44 ALA A 56 1 13 HELIX 2 2 MET A 77 LEU A 82 1 6 SHEET 1 A 5 LYS A 34 VAL A 40 0 SHEET 2 A 5 CYS A 24 LEU A 30 -1 N CYS A 24 O VAL A 40 SHEET 3 A 5 VAL A 89 ILE A 93 1 O VAL A 90 N ARG A 29 SHEET 4 A 5 ARG A 65 PHE A 68 -1 N PHE A 67 O GLN A 91 SHEET 5 A 5 ARG A 71 PRO A 72 -1 O ARG A 71 N PHE A 68 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 MODEL 2 MODEL 3 MODEL 4 MODEL 5 MODEL 6 MODEL 7 MODEL 8 MODEL 9 MODEL 10 MODEL 11 MODEL 12 MODEL 13 MODEL 14 MODEL 15