PDB Short entry for 2JTK HEADER SIGNALING PROTEIN 02-AUG-07 2JTK TITLE A FUNCTIONAL DOMAIN OF A WNT SIGNAL PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DICKKOPF-RELATED PROTEIN 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: DKK-TYPE CYS-2 REGION; COMPND 5 SYNONYM: DKK-2, DICKKOPF-2, MDKK-2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 GENE: DKK2; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PET32A KEYWDS PROTEIN, DEVELOPMENTAL PROTEIN, GLYCOPROTEIN, SECRETED, WNT SIGNALING KEYWDS 2 PATHWAY, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR L.CHEN,Y.SHAO,J.HUANG,J.ZHENG REVDAT 4 16-MAR-22 2JTK 1 REMARK SEQADV REVDAT 3 24-FEB-09 2JTK 1 VERSN REVDAT 2 09-SEP-08 2JTK 1 JRNL REVDAT 1 08-JUL-08 2JTK 0 JRNL AUTH L.CHEN,K.WANG,Y.SHAO,J.HUANG,X.LI,J.SHAN,D.WU,J.J.ZHENG JRNL TITL STRUCTURAL INSIGHT INTO THE MECHANISMS OF WNT SIGNALING JRNL TITL 2 ANTAGONISM BY DKK JRNL REF J.BIOL.CHEM. V. 283 23364 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18524778 JRNL DOI 10.1074/JBC.M802375200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.1 REMARK 3 AUTHORS : P.GUNTERT ET AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2JTK COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-AUG-07. REMARK 100 THE DEPOSITION ID IS D_1000100272. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5 REMARK 210 IONIC STRENGTH : 5 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-99% 13C; U-99% 15N] REMARK 210 PROTEIN, 5 MM [U-99% 2H] ACETIC REMARK 210 ACID, 250 MM UREA, 90% H2O/10% REMARK 210 D2O; 1 MM [U-99% 15N] PROTEIN, 5 REMARK 210 MM [U-99% 2H] ACETIC ACID, 250 REMARK 210 MM UREA, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D CBCA(CO)NH; 3D HNCACB; 3D REMARK 210 HCCH-TOCSY; 3D HBHA(CO)NH; 3D 1H- REMARK 210 15N TOCSY; 3D 1H-15N NOESY; 3D REMARK 210 1H-13C NOESY; 2D 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA, NMRPIPE REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLY A 170 REMARK 465 SER A 171 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 173 -174.09 -69.75 REMARK 500 1 HIS A 174 98.90 -61.81 REMARK 500 1 GLU A 179 80.19 57.69 REMARK 500 1 LEU A 184 16.42 -146.31 REMARK 500 1 SER A 187 -78.58 -138.19 REMARK 500 1 ILE A 190 156.76 -49.97 REMARK 500 1 GLN A 229 78.89 -101.92 REMARK 500 1 ALA A 245 79.33 -65.14 REMARK 500 1 THR A 246 -37.39 -164.16 REMARK 500 1 LYS A 250 -66.24 -178.11 REMARK 500 2 GLU A 179 85.36 63.74 REMARK 500 2 LEU A 184 18.16 -148.90 REMARK 500 2 SER A 187 -80.17 -143.20 REMARK 500 2 ALA A 245 79.29 -64.90 REMARK 500 2 THR A 246 -37.25 -164.18 REMARK 500 2 LYS A 250 -67.60 -174.94 REMARK 500 3 HIS A 174 107.73 -55.01 REMARK 500 3 GLU A 179 85.61 64.75 REMARK 500 3 LEU A 184 19.25 -148.96 REMARK 500 3 SER A 187 -82.25 -137.92 REMARK 500 3 GLN A 229 79.93 -101.57 REMARK 500 3 ALA A 245 79.20 -65.00 REMARK 500 3 THR A 246 -37.32 -164.07 REMARK 500 3 LYS A 250 -68.57 -171.53 REMARK 500 4 GLU A 179 86.22 64.58 REMARK 500 4 LEU A 184 17.61 -148.07 REMARK 500 4 SER A 187 -79.39 -140.57 REMARK 500 4 GLN A 229 79.71 -105.22 REMARK 500 4 ALA A 245 79.37 -64.81 REMARK 500 4 THR A 246 -37.35 -164.28 REMARK 500 4 LYS A 250 -70.31 -167.84 REMARK 500 5 HIS A 174 102.91 62.84 REMARK 500 5 GLU A 179 86.25 64.69 REMARK 500 5 LEU A 184 20.49 -149.43 REMARK 500 5 SER A 187 -80.48 -142.65 REMARK 500 5 GLN A 229 79.07 -102.07 REMARK 500 5 ALA A 245 79.26 -64.92 REMARK 500 5 THR A 246 -37.34 -164.15 REMARK 500 5 LYS A 250 -69.69 -169.91 REMARK 500 6 GLU A 179 86.82 64.73 REMARK 500 6 SER A 187 -82.51 -127.64 REMARK 500 6 ALA A 245 79.25 -64.95 REMARK 500 6 THR A 246 -37.48 -164.14 REMARK 500 6 LYS A 250 -66.91 -177.69 REMARK 500 7 HIS A 174 96.61 61.18 REMARK 500 7 GLU A 179 83.67 62.42 REMARK 500 7 SER A 187 -77.96 -121.88 REMARK 500 7 GLN A 229 77.33 -102.61 REMARK 500 7 ALA A 245 79.47 -64.77 REMARK 500 7 THR A 246 -37.51 -164.30 REMARK 500 REMARK 500 THIS ENTRY HAS 151 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: AUTHOR DBREF 2JTK A 172 259 UNP Q9QYZ8 DKK2_MOUSE 172 259 SEQADV 2JTK GLY A 170 UNP Q9QYZ8 EXPRESSION TAG SEQADV 2JTK SER A 171 UNP Q9QYZ8 EXPRESSION TAG SEQRES 1 A 90 GLY SER MET PRO HIS ILE LYS GLY HIS GLU GLY ASP PRO SEQRES 2 A 90 CYS LEU ARG SER SER ASP CYS ILE ASP GLY PHE CYS CYS SEQRES 3 A 90 ALA ARG HIS PHE TRP THR LYS ILE CYS LYS PRO VAL LEU SEQRES 4 A 90 HIS GLN GLY GLU VAL CYS THR LYS GLN ARG LYS LYS GLY SEQRES 5 A 90 SER HIS GLY LEU GLU ILE PHE GLN ARG CYS ASP CYS ALA SEQRES 6 A 90 LYS GLY LEU SER CYS LYS VAL TRP LYS ASP ALA THR TYR SEQRES 7 A 90 SER SER LYS ALA ARG LEU HIS VAL CYS GLN LYS ILE HELIX 1 1 THR A 246 LYS A 250 5 5 SHEET 1 A 3 ASP A 181 CYS A 183 0 SHEET 2 A 3 LYS A 202 PRO A 206 0 SHEET 3 A 3 PHE A 193 ARG A 197 0 SHEET 1 B 3 GLU A 212 CYS A 214 0 SHEET 2 B 3 HIS A 254 LYS A 258 0 SHEET 3 B 3 LEU A 237 VAL A 241 0 SSBOND 1 CYS A 183 CYS A 195 1555 1555 2.07 SSBOND 2 CYS A 189 CYS A 204 1555 1555 1.85 SSBOND 3 CYS A 194 CYS A 231 1555 1555 2.15 SSBOND 4 CYS A 214 CYS A 239 1555 1555 2.12 SSBOND 5 CYS A 233 CYS A 256 1555 1555 1.95 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