HEADER SIGNALING PROTEIN 08-JAN-10 2KSN TITLE SOLUTION STRUCTURE OF THE N-TERMINAL DOMAIN OF DC-UBP/UBTD2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN DOMAIN-CONTAINING PROTEIN 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 14-141; COMPND 5 SYNONYM: DENDRITIC CELL-DERIVED UBIQUITIN-LIKE PROTEIN, DC-UBP, COMPND 6 UBIQUITIN-LIKE PROTEIN SB72; COMPND 7 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: UBTD2, DCUBP, SB72; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET-22B KEYWDS UBTD2, DC-UBP, UBIQUITIN, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR A.SONG,C.ZHOU,X.GUAN,K.SZE,H.HU REVDAT 3 29-MAY-24 2KSN 1 REMARK REVDAT 2 16-MAR-22 2KSN 1 REMARK SEQADV REVDAT 1 19-MAY-10 2KSN 0 JRNL AUTH A.SONG,C.ZHOU,X.GUAN,K.SZE,H.HU JRNL TITL SOLUTION STRUCTURE OF THE N-TERMINAL DOMAIN OF DC-UBP/UBTD2 JRNL TITL 2 AND ITS INTERACTION WITH UBIQUITIN JRNL REF PROTEIN SCI. V. 19 1104 2010 JRNL REFN ISSN 0961-8368 JRNL PMID 20440844 JRNL DOI 10.1002/PRO.386 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE, ARIA 2.0 REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), LINGE, O'DONOGHUE AND NILGES (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KSN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-JAN-10. REMARK 100 THE DEPOSITION ID IS D_1000101524. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM [U-100% 15N] PROTEIN-1, 20MM REMARK 210 SODIUM PHOSPHATE-2, 100MM SODIUM REMARK 210 CHLORIDE-3, 90% H2O/10% D2O; 1MM REMARK 210 [U-100% 13C; U-100% 15N] PROTEIN- REMARK 210 4, 20MM SODIUM PHOSPHATE-5, REMARK 210 100MM SODIUM CHLORIDE-6, 90% H2O/ REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNHA; 3D 1H REMARK 210 -15N NOESY; 3D CBCA(CO)NH; 3D REMARK 210 HNCACB; 3D C(CO)NH; 3D HNCO; 3D REMARK 210 HCCH-TOCSY; 3D HCCH-COSY; 3D 1H- REMARK 210 13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, ARIA 2.0, PROCHECKNMR REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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 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 1-10 REMARK 465 RES C SSSEQI REMARK 465 MET A 13 REMARK 465 LEU A 142 REMARK 465 GLU A 143 REMARK 465 HIS A 144 REMARK 465 HIS A 145 REMARK 465 HIS A 146 REMARK 465 HIS A 147 REMARK 465 HIS A 148 REMARK 465 HIS A 149 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 HE1 TRP A 39 HG23 VAL A 120 1.07 REMARK 500 HG13 ILE A 98 HA ASP A 110 1.33 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 ASN A 16 71.54 53.06 REMARK 500 1 VAL A 24 124.35 71.93 REMARK 500 1 ALA A 25 -68.24 -128.73 REMARK 500 1 PRO A 31 -164.53 -78.60 REMARK 500 1 TRP A 39 -13.39 147.51 REMARK 500 1 MET A 45 -81.99 -102.98 REMARK 500 1 ALA A 61 -75.58 -75.58 REMARK 500 1 ALA A 63 -106.42 56.20 REMARK 500 1 GLU A 65 -172.60 76.03 REMARK 500 1 ASN A 97 -30.47 156.31 REMARK 500 1 LEU A 123 -54.35 -137.08 REMARK 500 1 ILE A 130 -73.62 72.50 REMARK 500 1 ASP A 135 -48.30 -162.95 REMARK 500 1 GLU A 137 -55.88 -139.50 REMARK 500 2 SER A 19 46.44 -79.90 REMARK 500 2 GLU A 20 -60.07 70.66 REMARK 500 2 THR A 22 54.29 -102.03 REMARK 500 2 ALA A 25 -79.45 -85.71 REMARK 500 2 PRO A 31 -164.57 -79.71 REMARK 500 2 LYS A 33 109.53 -57.25 REMARK 500 2 TRP A 39 25.17 -176.30 REMARK 500 2 MET A 45 -82.64 78.18 REMARK 500 2 ALA A 63 -116.31 61.86 REMARK 500 2 ARG A 67 94.72 -66.51 REMARK 500 2 LEU A 123 -71.38 -133.85 REMARK 500 2 ILE A 127 52.74 -90.91 REMARK 500 2 GLU A 132 -106.00 -84.77 REMARK 500 2 SER A 134 -108.88 38.24 REMARK 500 2 LEU A 139 44.40 -142.30 REMARK 500 3 LEU A 15 39.55 -98.88 REMARK 500 3 ALA A 25 -70.11 -73.37 REMARK 500 3 PRO A 31 -165.29 -76.63 REMARK 500 3 TRP A 39 -4.52 125.64 REMARK 500 3 MET A 45 -81.30 -91.76 REMARK 500 3 ALA A 63 -107.44 55.42 REMARK 500 3 LEU A 123 -53.04 -132.54 REMARK 500 3 ILE A 130 -70.95 69.17 REMARK 500 3 LYS A 133 -89.03 20.38 REMARK 500 3 SER A 134 81.77 179.36 REMARK 500 3 ASP A 135 -41.02 -134.05 REMARK 500 3 ILE A 136 -80.40 -36.06 REMARK 500 4 SER A 19 46.18 -79.11 REMARK 500 4 GLU A 20 116.02 64.98 REMARK 500 4 VAL A 24 125.26 73.52 REMARK 500 4 ALA A 25 -88.13 -103.73 REMARK 500 4 PRO A 31 -164.99 -79.59 REMARK 500 4 TRP A 39 -17.25 152.01 REMARK 500 4 MET A 45 -137.64 -108.03 REMARK 500 4 GLU A 65 -136.47 42.27 REMARK 500 4 LEU A 123 -52.05 -139.60 REMARK 500 REMARK 500 THIS ENTRY HAS 151 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2KSN A 14 141 UNP Q8WUN7 UBTD2_HUMAN 14 141 SEQADV 2KSN MET A 13 UNP Q8WUN7 EXPRESSION TAG SEQADV 2KSN LEU A 142 UNP Q8WUN7 EXPRESSION TAG SEQADV 2KSN GLU A 143 UNP Q8WUN7 EXPRESSION TAG SEQADV 2KSN HIS A 144 UNP Q8WUN7 EXPRESSION TAG SEQADV 2KSN HIS A 145 UNP Q8WUN7 EXPRESSION TAG SEQADV 2KSN HIS A 146 UNP Q8WUN7 EXPRESSION TAG SEQADV 2KSN HIS A 147 UNP Q8WUN7 EXPRESSION TAG SEQADV 2KSN HIS A 148 UNP Q8WUN7 EXPRESSION TAG SEQADV 2KSN HIS A 149 UNP Q8WUN7 EXPRESSION TAG SEQRES 1 A 137 MET SER LEU ASN GLU ASN SER GLU GLY THR GLY VAL ALA SEQRES 2 A 137 LEU GLY ARG ASN GLN PRO LEU LYS LYS GLU LYS PRO LYS SEQRES 3 A 137 TRP LYS SER ASP TYR PRO MET THR ASP GLY GLN LEU ARG SEQRES 4 A 137 SER LYS ARG ASP GLU PHE TRP ASP THR ALA PRO ALA PHE SEQRES 5 A 137 GLU GLY ARG LYS GLU ILE TRP ASP ALA LEU LYS ALA ALA SEQRES 6 A 137 ALA HIS ALA PHE GLU SER ASN ASP HIS GLU LEU ALA GLN SEQRES 7 A 137 ALA ILE ILE ASP GLY ALA ASN ILE THR LEU PRO HIS GLY SEQRES 8 A 137 ALA LEU THR GLU CYS TYR ASP GLU LEU GLY ASN ARG TYR SEQRES 9 A 137 GLN LEU PRO VAL TYR CYS LEU ALA PRO PRO ILE ASN MET SEQRES 10 A 137 ILE GLU GLU LYS SER ASP ILE GLU THR LEU ASP ILE LEU SEQRES 11 A 137 GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 THR A 46 ASP A 59 1 14 HELIX 2 2 ARG A 67 SER A 83 1 17 HELIX 3 3 ASP A 85 ASN A 97 1 13 HELIX 4 4 PRO A 119 LEU A 123 5 5 SHEET 1 A 2 GLU A 107 ASP A 110 0 SHEET 2 A 2 ASN A 114 GLN A 117 -1 O TYR A 116 N CYS A 108 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