HEADER CELL ADHESION 16-JUN-15 2N40 TITLE SOLUTION STRUCTURE OF THE LINK MODULE OF HUMAN TSG-6 IN PRESENCE OF A TITLE 2 CHONDROITIN 4-SULFATE HEXASACCHARIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TUMOR NECROSIS FACTOR-INDUCIBLE GENE 6 PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: LINK MODULE OF TSG-6, UNP RESIDUES 36-133; COMPND 5 SYNONYM: HYALURONATE-BINDING PROTEIN, TNF-STIMULATED GENE 6 PROTEIN, COMPND 6 TSG-6, TUMOR NECROSIS FACTOR ALPHA-INDUCED PROTEIN 6, TNF ALPHA- COMPND 7 INDUCED PROTEIN 6; COMPND 8 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: TNFAIP6, TSG6; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PRK172 KEYWDS LINK MODULE, TSG-6, GLYCOPROTEIN, CHONDROITIN SULFATE, CELL ADHESION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Y.PARK,J.H.PRESTEGARD REVDAT 5 14-JUN-23 2N40 1 REMARK REVDAT 4 27-OCT-21 2N40 1 REMARK REVDAT 3 06-NOV-19 2N40 1 REMARK REVDAT 2 10-FEB-16 2N40 1 JRNL REVDAT 1 13-JAN-16 2N40 0 JRNL AUTH Y.PARK,T.A.JOWITT,A.J.DAY,J.H.PRESTEGARD JRNL TITL NUCLEAR MAGNETIC RESONANCE INSIGHT INTO THE MULTIPLE JRNL TITL 2 GLYCOSAMINOGLYCAN BINDING MODES OF THE LINK MODULE FROM JRNL TITL 3 HUMAN TSG-6. JRNL REF BIOCHEMISTRY V. 55 262 2016 JRNL REFN ISSN 0006-2960 JRNL PMID 26685054 JRNL DOI 10.1021/ACS.BIOCHEM.5B01148 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH 2.8, CYANA 3.0 REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X-PLOR REMARK 3 NIH), GUNTERT, MUMENTHALER AND WUTHRICH (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2N40 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000104393. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 50 MM MES, 0.02 % NAN3, 0.5 MM REMARK 210 [U-100% 13C; U-100% 15N] LINK- REMARK 210 TSG, 0.6 MM CHONDROITIN 4- REMARK 210 SULFATE HEXASACCHARIDE, 90% H2O/ REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCO; 3D HNCACB; 3D HCCH- REMARK 210 TOCSY; 3D 1H-15N NOESY; 3D 1H- REMARK 210 13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR NIH 2.8, CYANA 3.0, REMARK 210 SPARKY, NMRDRAW, NMRPIPE REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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 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 LYS A 11 -90.13 -150.24 REMARK 500 1 GLU A 24 -14.48 69.40 REMARK 500 1 ALA A 48 138.21 -170.85 REMARK 500 1 LYS A 63 -62.30 -158.41 REMARK 500 1 LYS A 72 169.77 55.77 REMARK 500 1 ILE A 80 104.19 50.77 REMARK 500 1 ASN A 83 22.12 -77.83 REMARK 500 1 ARG A 84 -5.58 -51.68 REMARK 500 1 ASP A 89 -164.44 -71.93 REMARK 500 2 TYR A 12 16.25 47.62 REMARK 500 2 GLU A 24 -3.31 67.17 REMARK 500 2 ALA A 48 109.84 -170.71 REMARK 500 2 LYS A 63 -61.46 -167.50 REMARK 500 2 PHE A 70 29.21 -76.29 REMARK 500 2 ILE A 76 -39.24 -149.85 REMARK 500 2 ASN A 83 23.97 -74.66 REMARK 500 2 ARG A 84 -5.59 -51.48 REMARK 500 2 GLU A 86 -140.00 -96.93 REMARK 500 2 ASP A 89 -165.21 -72.91 REMARK 500 2 CYS A 92 -166.69 -123.46 REMARK 500 2 HIS A 96 -105.55 -149.94 REMARK 500 3 LYS A 11 -35.70 -173.28 REMARK 500 3 TYR A 12 80.78 -159.53 REMARK 500 3 LYS A 13 42.52 -147.19 REMARK 500 3 GLU A 24 -26.12 73.99 REMARK 500 3 ALA A 31 85.61 -60.92 REMARK 500 3 ALA A 53 149.78 -38.71 REMARK 500 3 TYR A 59 84.83 -152.50 REMARK 500 3 PRO A 64 140.54 -39.89 REMARK 500 3 PHE A 70 79.57 49.54 REMARK 500 3 LYS A 72 163.98 55.76 REMARK 500 3 ASN A 83 22.65 -71.86 REMARK 500 3 ARG A 84 -12.86 -48.06 REMARK 500 3 ASP A 89 -179.70 -59.86 REMARK 500 4 TYR A 12 17.25 56.53 REMARK 500 4 LYS A 13 38.64 -80.48 REMARK 500 4 GLU A 24 -7.98 63.04 REMARK 500 4 ALA A 53 144.10 -30.71 REMARK 500 4 LYS A 54 15.46 55.35 REMARK 500 4 PRO A 64 143.87 -39.63 REMARK 500 4 PHE A 70 -97.32 45.50 REMARK 500 4 LYS A 72 -161.59 -71.81 REMARK 500 4 ASN A 83 20.44 -76.06 REMARK 500 4 ARG A 84 -1.60 -54.94 REMARK 500 4 ASP A 89 -169.29 -73.55 REMARK 500 4 TYR A 93 113.56 -160.04 REMARK 500 4 ALA A 97 -151.87 58.30 REMARK 500 5 LYS A 11 87.09 -162.38 REMARK 500 5 LYS A 13 48.04 -74.10 REMARK 500 5 GLU A 24 -27.28 72.68 REMARK 500 REMARK 500 THIS ENTRY HAS 262 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 3 ARG A 8 0.09 SIDE CHAIN REMARK 500 7 ARG A 8 0.09 SIDE CHAIN REMARK 500 14 ARG A 8 0.08 SIDE CHAIN REMARK 500 20 ARG A 8 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25663 RELATED DB: BMRB DBREF 2N40 A 1 98 UNP P98066 TSG6_HUMAN 36 133 SEQRES 1 A 98 GLY VAL TYR HIS ARG GLU ALA ARG SER GLY LYS TYR LYS SEQRES 2 A 98 LEU THR TYR ALA GLU ALA LYS ALA VAL CYS GLU PHE GLU SEQRES 3 A 98 GLY GLY HIS LEU ALA THR TYR LYS GLN LEU GLU ALA ALA SEQRES 4 A 98 ARG LYS ILE GLY PHE HIS VAL CYS ALA ALA GLY TRP MET SEQRES 5 A 98 ALA LYS GLY ARG VAL GLY TYR PRO ILE VAL LYS PRO GLY SEQRES 6 A 98 PRO ASN CYS GLY PHE GLY LYS THR GLY ILE ILE ASP TYR SEQRES 7 A 98 GLY ILE ARG LEU ASN ARG SER GLU ARG TRP ASP ALA TYR SEQRES 8 A 98 CYS TYR ASN PRO HIS ALA LYS HELIX 1 1 THR A 15 CYS A 23 1 9 HELIX 2 2 THR A 32 LYS A 41 1 10 SHEET 1 A 4 HIS A 4 ARG A 5 0 SHEET 2 A 4 ASP A 89 TYR A 91 -1 O ALA A 90 N ARG A 5 SHEET 3 A 4 GLY A 50 MET A 52 1 N TRP A 51 O ASP A 89 SHEET 4 A 4 ARG A 56 GLY A 58 -1 O ARG A 56 N MET A 52 SSBOND 1 CYS A 23 CYS A 92 1555 1555 2.03 SSBOND 2 CYS A 47 CYS A 68 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 MODEL 1