PDB Short entry for 2K8P HEADER SIGNALING PROTEIN 18-SEP-08 2K8P TITLE CHARACTERISATION OF THE STRUCTURAL FEATURES AND INTERACTIONS OF TITLE 2 SCLEROSTIN: MOLECULAR INSIGHT INTO A KEY REGULATOR OF WNT-MEDIATED TITLE 3 BONE FORMATION COMPND MOL_ID: 1; COMPND 2 MOLECULE: SCLEROSTIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 25 TO 213; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: MAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SOST, UNQ2976/PRO7455/PRO7476; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PMAL KEYWDS WNT SIGNALLING PATHWAY, BONE FORMATION, ALTERNATIVE SPLICING, KEYWDS 2 GLYCOPROTEIN, SECRETED, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 36 AUTHOR V.VEVERKA,A.J.HENRY,P.M.SLOCOMBE,A.VENTOM,B.MULLOY,F.W.MUSKETT, AUTHOR 2 M.MUZYLAK,K.GREENSLADE,A.MOORE,L.ZHANG,J.GONG,X.QIAN,C.PASZTY, AUTHOR 3 R.J.TAYLOR,M.K.ROBINSON,M.D.CARR REVDAT 3 16-MAR-22 2K8P 1 REMARK REVDAT 2 28-APR-09 2K8P 1 JRNL REVDAT 1 17-FEB-09 2K8P 0 JRNL AUTH V.VEVERKA,A.J.HENRY,P.M.SLOCOMBE,A.VENTOM,B.MULLOY, JRNL AUTH 2 F.W.MUSKETT,M.MUZYLAK,K.GREENSLADE,A.MOORE,L.ZHANG,J.GONG, JRNL AUTH 3 X.QIAN,C.PASZTY,R.J.TAYLOR,M.K.ROBINSON,M.D.CARR JRNL TITL CHARACTERIZATION OF THE STRUCTURAL FEATURES AND INTERACTIONS JRNL TITL 2 OF SCLEROSTIN: MOLECULAR INSIGHT INTO A KEY REGULATOR OF JRNL TITL 3 WNT-MEDIATED BONE FORMATION JRNL REF J.BIOL.CHEM. V. 284 10890 2009 JRNL REFN ISSN 0021-9258 JRNL PMID 19208630 JRNL DOI 10.1074/JBC.M807994200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN, CYANA REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), GUNTERT, MUMENTHALER AND REMARK 3 WUTHRICH (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2K8P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-SEP-08. REMARK 100 THE DEPOSITION ID IS D_1000100816. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 5.5 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : AMBIENT ATM REMARK 210 SAMPLE CONTENTS : 310 UM ENTITY, 5 % D2O, 95 % REMARK 210 H2O, 25 MM SODIUM PHOSPHATE, 100 REMARK 210 MM SODIUM CHLORIDE, 95% H2O/5% REMARK 210 D2O; 250 UM [U-15N] ENTITY, 5 % REMARK 210 D2O, 95 % H2O, 25 MM SODIUM REMARK 210 PHOSPHATE, 100 MM SODIUM REMARK 210 CHLORIDE, 95% H2O/5% D2O; 200 UM REMARK 210 [U-13C; U-15N] ENTITY, 5 % D2O, REMARK 210 95 % H2O, 25 MM SODIUM PHOSPHATE, REMARK 210 100 MM SODIUM CHLORIDE, 95% H2O/ REMARK 210 5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-1H TOCSY; 2D 1H-1H NOESY; REMARK 210 3D CBCA(CO)NH; 3D HNCACB; 3D REMARK 210 HCCH-TOCSY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, CYANA REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 36 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION 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 ALA A 9 -162.70 -74.21 REMARK 500 1 THR A 10 116.57 -166.47 REMARK 500 1 LEU A 16 -174.18 52.91 REMARK 500 1 GLU A 18 77.16 -116.92 REMARK 500 1 TYR A 19 68.16 -119.48 REMARK 500 1 GLU A 25 91.40 -163.40 REMARK 500 1 THR A 48 132.07 -174.54 REMARK 500 1 SER A 52 67.14 -165.88 REMARK 500 1 SER A 55 -172.05 63.25 REMARK 500 1 ALA A 88 71.61 56.43 REMARK 500 1 LEU A 90 104.84 -166.30 REMARK 500 1 ALA A 94 94.14 60.72 REMARK 500 1 TRP A 101 -55.43 -161.31 REMARK 500 1 PRO A 125 -174.24 -69.81 REMARK 500 1 CYS A 141 140.96 -171.84 REMARK 500 1 PHE A 149 36.07 -153.66 REMARK 500 1 GLN A 152 163.97 63.15 REMARK 500 1 LYS A 156 170.53 62.42 REMARK 500 1 ASP A 157 95.11 -176.88 REMARK 500 1 PRO A 165 -175.82 -69.74 REMARK 500 1 GLN A 166 110.56 -166.85 REMARK 500 1 ALA A 175 129.16 -174.05 REMARK 500 1 LEU A 185 30.51 -146.94 REMARK 500 2 GLU A 11 -174.12 52.99 REMARK 500 2 ILE A 13 108.63 -50.38 REMARK 500 2 LEU A 16 -169.25 51.08 REMARK 500 2 ASN A 29 -53.82 -122.92 REMARK 500 2 LYS A 30 -179.75 58.30 REMARK 500 2 ARG A 40 71.16 -170.84 REMARK 500 2 SER A 55 -170.47 -67.39 REMARK 500 2 ALA A 88 59.49 -168.03 REMARK 500 2 LYS A 99 173.02 60.29 REMARK 500 2 TRP A 101 -74.66 -55.27 REMARK 500 2 PHE A 108 -71.23 -51.94 REMARK 500 2 ARG A 109 -74.11 -179.48 REMARK 500 2 CYS A 110 124.47 -177.92 REMARK 500 2 PRO A 125 -178.55 -69.69 REMARK 500 2 PRO A 130 -173.68 -69.80 REMARK 500 2 THR A 147 119.92 -164.50 REMARK 500 2 GLN A 166 116.56 -173.03 REMARK 500 2 SER A 177 144.17 -175.61 REMARK 500 2 ASN A 181 -50.10 -140.61 REMARK 500 2 GLN A 182 91.42 55.02 REMARK 500 2 LEU A 185 56.98 -147.21 REMARK 500 2 ASN A 187 126.66 -176.40 REMARK 500 2 ALA A 188 -174.82 -173.42 REMARK 500 3 ALA A 4 -179.98 -62.05 REMARK 500 3 ASN A 7 133.75 -176.06 REMARK 500 3 PRO A 14 -171.76 -69.77 REMARK 500 3 LEU A 16 176.36 -58.72 REMARK 500 REMARK 500 THIS ENTRY HAS 940 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2K8P A 1 189 UNP Q9BQB4 SOST_HUMAN 25 213 SEQRES 1 A 189 GLY TRP GLN ALA PHE LYS ASN ASP ALA THR GLU ILE ILE SEQRES 2 A 189 PRO GLU LEU GLY GLU TYR PRO GLU PRO PRO PRO GLU LEU SEQRES 3 A 189 GLU ASN ASN LYS THR MET ASN ARG ALA GLU ASN GLY GLY SEQRES 4 A 189 ARG PRO PRO HIS HIS PRO PHE GLU THR LYS ASP VAL SER SEQRES 5 A 189 GLU TYR SER CYS ARG GLU LEU HIS PHE THR ARG TYR VAL SEQRES 6 A 189 THR ASP GLY PRO CYS ARG SER ALA LYS PRO VAL THR GLU SEQRES 7 A 189 LEU VAL CYS SER GLY GLN CYS GLY PRO ALA ARG LEU LEU SEQRES 8 A 189 PRO ASN ALA ILE GLY ARG GLY LYS TRP TRP ARG PRO SER SEQRES 9 A 189 GLY PRO ASP PHE ARG CYS ILE PRO ASP ARG TYR ARG ALA SEQRES 10 A 189 GLN ARG VAL GLN LEU LEU CYS PRO GLY GLY GLU ALA PRO SEQRES 11 A 189 ARG ALA ARG LYS VAL ARG LEU VAL ALA SER CYS LYS CYS SEQRES 12 A 189 LYS ARG LEU THR ARG PHE HIS ASN GLN SER GLU LEU LYS SEQRES 13 A 189 ASP PHE GLY THR GLU ALA ALA ARG PRO GLN LYS GLY ARG SEQRES 14 A 189 LYS PRO ARG PRO ARG ALA ARG SER ALA LYS ALA ASN GLN SEQRES 15 A 189 ALA GLU LEU GLU ASN ALA TYR SHEET 1 A 2 GLU A 58 ARG A 63 0 SHEET 2 A 2 VAL A 76 CYS A 81 -1 O GLU A 78 N PHE A 61 SHEET 1 B 3 ARG A 71 SER A 72 0 SHEET 2 B 3 TYR A 115 LEU A 123 -1 O LEU A 123 N ARG A 71 SHEET 3 B 3 ARG A 131 VAL A 138 -1 O ARG A 133 N VAL A 120 SHEET 1 C 2 ILE A 111 PRO A 112 0 SHEET 2 C 2 CYS A 141 LYS A 142 -1 O LYS A 142 N ILE A 111 SSBOND 1 CYS A 56 CYS A 110 1555 1555 1.99 SSBOND 2 CYS A 70 CYS A 124 1555 1555 1.96 SSBOND 3 CYS A 81 CYS A 141 1555 1555 2.01 SSBOND 4 CYS A 85 CYS A 143 1555 1555 2.02 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