HEADER STRUCTURAL PROTEIN 28-JUL-04 1U5M TITLE STRUCTURE OF A CHORDIN-LIKE CYSTEINE-RICH REPEAT (VWC MODULE) FROM TITLE 2 COLLAGEN IIA COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA 1 TYPE II COLLAGEN ISOFORM 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: EXON2; COMPND 5 SYNONYM: COLLAGEN II, ALPHA-1 POLYPEPTIDE; CARTILAGE COLLAGEN; COMPND 6 CHONDROCALCIN, INCLUDED; COL11A3, FORMERLY; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: COL2A1; SOURCE 6 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: GS115; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PPICK9K-CRCOLIIA KEYWDS 5 DISULFIDE BONDS, TWO SUB-DOMAIN ARCHITECTURE, BETA-SHEET, KEYWDS 2 STRUCTURAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.M.O'LEARY,J.M.HAMILTON,C.M.DEANE,N.V.VALEYEV,L.J.SANDELL, AUTHOR 2 A.K.DOWNING REVDAT 4 20-OCT-21 1U5M 1 REMARK SEQADV REVDAT 3 24-FEB-09 1U5M 1 VERSN REVDAT 2 17-JAN-06 1U5M 1 JRNL REVDAT 1 05-OCT-04 1U5M 0 JRNL AUTH J.M.O'LEARY,J.M.HAMILTON,C.M.DEANE,N.V.VALEYEV,L.J.SANDELL, JRNL AUTH 2 A.K.DOWNING JRNL TITL SOLUTION STRUCTURE AND DYNAMICS OF A PROTOTYPICAL JRNL TITL 2 CHORDIN-LIKE CYSTEINE-RICH REPEAT (VON WILLEBRAND FACTOR JRNL TITL 3 TYPE C MODULE) FROM COLLAGEN IIA JRNL REF J.BIOL.CHEM. V. 279 53857 2004 JRNL REFN ISSN 0021-9258 JRNL PMID 15466413 JRNL DOI 10.1074/JBC.M409225200 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.M.O'LEARY,C.M.RADCLIFFE,A.C.WILLIS,R.A.DWEK,P.M.RUDD, REMARK 1 AUTH 2 A.K.DOWNING REMARK 1 TITL IDENTIFICATION AND REMOVAL OF O-LINKED AND NON-COVALENTLY REMARK 1 TITL 2 LINKED SUGARS FROM RECOMBINANT PROTEIN PRODUCED USING PICHIA REMARK 1 TITL 3 PASTORIS REMARK 1 REF PROTEIN EXPR.PURIF. 2004 REMARK 1 REFN ESSN 1096-0279 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 1.0.6, CYANA 1.0.6 REMARK 3 AUTHORS : GUNTERT, P. (CYANA), GUNTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1U5M COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-AUG-04. REMARK 100 THE DEPOSITION ID IS D_1000023274. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 50 MM POTASSIUM PHOSPHATE REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.8MM U-15N EXON2; 50MM REMARK 210 PHOSPHATE BUFFER; 0.02% NAN3; 90% REMARK 210 H2O, 10% D2O; 0.8MM U-15N EXON2; REMARK 210 50MM PHOSPHATE BUFFER; 0.02% REMARK 210 NAN3; 99.9% D2O; 0.8MM U-15N,13C REMARK 210 EXON2; 50MM PHOSPHATE BUFFER; REMARK 210 0.02% NAN3; 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; HMQC-J; REMARK 210 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 750 MHZ REMARK 210 SPECTROMETER MODEL : OMEGA REMARK 210 SPECTROMETER MANUFACTURER : GE REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SEMI-AUTOMATED ASSIGNMENT AND REMARK 210 TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 600 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1,2 REMARK 210 REMARK 210 REMARK: SEQUENTIAL ASSIGNMENTS WERE MADE USING TRIPLE RESONANCE REMARK 210 TECHNIQUES. DISULFIDE BOND CONNECTIVITY WAS DETERMINED USING REMARK 210 NOESY DATA ACQUIRED AT DIFFERENT TEMPERATURES. 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: 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 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 GLU A 3 86.89 49.85 REMARK 500 1 ALA A 7 150.02 60.87 REMARK 500 1 ASP A 47 -161.64 177.92 REMARK 500 1 LYS A 49 -78.07 -114.08 REMARK 500 1 CYS A 51 -153.17 44.25 REMARK 500 1 LEU A 52 -71.14 -137.08 REMARK 500 1 PHE A 58 -95.82 56.26 REMARK 500 1 GLU A 60 -147.66 -128.58 REMARK 500 1 ASP A 68 -50.88 -174.86 REMARK 500 1 ALA A 70 74.96 60.52 REMARK 500 2 SER A 9 153.99 179.98 REMARK 500 2 ASN A 18 -170.43 -54.70 REMARK 500 2 CYS A 28 -36.95 -169.22 REMARK 500 2 ASP A 50 -33.28 166.77 REMARK 500 2 CYS A 51 166.23 64.51 REMARK 500 2 LEU A 52 -96.74 -49.46 REMARK 500 2 PHE A 58 44.59 36.31 REMARK 500 2 GLU A 60 -77.57 -137.55 REMARK 500 2 CYS A 61 -38.03 -178.28 REMARK 500 2 ALA A 67 -150.96 -68.34 REMARK 500 2 ALA A 70 173.91 56.59 REMARK 500 2 ALA A 72 -59.92 74.94 REMARK 500 3 VAL A 2 134.54 -173.32 REMARK 500 3 ASN A 18 -177.86 -59.80 REMARK 500 3 ILE A 43 98.95 -69.31 REMARK 500 3 GLU A 46 105.81 -56.47 REMARK 500 3 VAL A 48 140.80 65.00 REMARK 500 3 LYS A 49 46.45 -94.75 REMARK 500 3 ASP A 50 27.49 -145.49 REMARK 500 3 LEU A 52 -90.11 -69.81 REMARK 500 3 PHE A 58 43.80 36.85 REMARK 500 3 GLU A 60 -135.62 -136.22 REMARK 500 3 ALA A 67 53.19 -145.33 REMARK 500 3 ASP A 68 49.09 -161.87 REMARK 500 3 ALA A 71 -62.37 -163.52 REMARK 500 4 GLU A 3 -60.26 -145.12 REMARK 500 4 PHE A 4 90.52 50.24 REMARK 500 4 ASN A 18 175.58 -56.15 REMARK 500 4 ASP A 47 33.39 -168.45 REMARK 500 4 LYS A 49 -77.62 -111.12 REMARK 500 4 ASP A 50 55.45 -147.73 REMARK 500 4 CYS A 51 163.25 -48.37 REMARK 500 4 LEU A 52 -76.27 -50.26 REMARK 500 4 GLU A 60 -149.76 -141.35 REMARK 500 4 ALA A 67 75.94 -101.90 REMARK 500 4 ASP A 68 -49.25 -154.83 REMARK 500 5 PHE A 4 94.09 51.13 REMARK 500 5 SER A 9 157.24 62.72 REMARK 500 5 ASP A 47 89.09 -152.79 REMARK 500 5 VAL A 48 149.34 66.35 REMARK 500 REMARK 500 THIS ENTRY HAS 249 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FBR RELATED DB: PDB REMARK 900 PAIR OF FIBRONECTIN TYPE I DOMAINS DBREF 1U5M A 1 73 UNP P02458 CO2A1_HUMAN 25 97 SEQADV 1U5M TYR A 1 UNP P02458 GLY 25 CLONING ARTIFACT SEQADV 1U5M VAL A 2 UNP P02458 GLN 26 CLONING ARTIFACT SEQADV 1U5M GLU A 3 UNP P02458 ASP 27 CLONING ARTIFACT SEQADV 1U5M PHE A 4 UNP P02458 VAL 28 CLONING ARTIFACT SEQADV 1U5M ALA A 67 UNP P02458 THR 91 ENGINEERED MUTATION SEQADV 1U5M ALA A 71 UNP P02458 THR 95 ENGINEERED MUTATION SEQADV 1U5M ALA A 73 UNP P02458 SER 97 ENGINEERED MUTATION SEQRES 1 A 73 TYR VAL GLU PHE GLN GLU ALA GLY SER CYS VAL GLN ASP SEQRES 2 A 73 GLY GLN ARG TYR ASN ASP LYS ASP VAL TRP LYS PRO GLU SEQRES 3 A 73 PRO CYS ARG ILE CYS VAL CYS ASP THR GLY THR VAL LEU SEQRES 4 A 73 CYS ASP ASP ILE ILE CYS GLU ASP VAL LYS ASP CYS LEU SEQRES 5 A 73 SER PRO GLU ILE PRO PHE GLY GLU CYS CYS PRO ILE CYS SEQRES 6 A 73 PRO ALA ASP LEU ALA ALA ALA ALA SHEET 1 A 2 CYS A 10 VAL A 11 0 SHEET 2 A 2 ARG A 16 TYR A 17 -1 O TYR A 17 N CYS A 10 SHEET 1 B 3 VAL A 22 TRP A 23 0 SHEET 2 B 3 ARG A 29 ASP A 34 -1 O CYS A 31 N TRP A 23 SHEET 3 B 3 THR A 37 ASP A 42 -1 O LEU A 39 N VAL A 32 SSBOND 1 CYS A 10 CYS A 33 1555 1555 2.00 SSBOND 2 CYS A 28 CYS A 61 1555 1555 1.99 SSBOND 3 CYS A 31 CYS A 40 1555 1555 2.00 SSBOND 4 CYS A 45 CYS A 62 1555 1555 2.05 SSBOND 5 CYS A 51 CYS A 65 1555 1555 2.15 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