PDB Short entry for 2I83 HEADER CELL ADHESION 01-SEP-06 2I83 TITLE HYALURONAN-BINDING DOMAIN OF CD44 IN ITS LIGAND-BOUND FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: CD44 ANTIGEN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HYALURONAN BINDING DOMAIN RESIDUE 21-178; COMPND 5 SYNONYM: PHAGOCYTIC GLYCOPROTEIN I, PGP-1, HUTCH-I, EXTRACELLULAR COMPND 6 MATRIX RECEPTOR-III, ECMR-III, GP90 LYMPHOCYTE HOMING/ADHESION COMPND 7 RECEPTOR, HERMES ANTIGEN, HYALURONATE RECEPTOR, HEPARAN SULFATE COMPND 8 PROTEOGLYCAN, EPICAN, CDW44; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET11 KEYWDS LINK MODULE, CELL ADHESION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.TAKEDA,S.OGINO,R.UMEMOTO,M.SAKAKURA,M.KAJIWARA,K.N.SUGAHARA, AUTHOR 2 H.HAYASAKA,M.MIYASAKA,H.TERASAWA,I.SHIMADA REVDAT 4 09-MAR-22 2I83 1 REMARK SEQADV REVDAT 3 24-FEB-09 2I83 1 VERSN REVDAT 2 09-JAN-07 2I83 1 JRNL REVDAT 1 21-NOV-06 2I83 0 JRNL AUTH M.TAKEDA,S.OGINO,R.UMEMOTO,M.SAKAKURA,M.KAJIWARA, JRNL AUTH 2 K.N.SUGAHARA,H.HAYASAKA,M.MIYASAKA,H.TERASAWA,I.SHIMADA JRNL TITL LIGAND-INDUCED STRUCTURAL CHANGES OF THE CD44 JRNL TITL 2 HYALURONAN-BINDING DOMAIN REVEALED BY NMR JRNL REF J.BIOL.CHEM. V. 281 40089 2006 JRNL REFN ISSN 0021-9258 JRNL PMID 17085435 JRNL DOI 10.1074/JBC.M608425200 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 2I83 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1000039255. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310 REMARK 210 PH : 6.7 REMARK 210 IONIC STRENGTH : 150MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2.0MM CD44HABD U-15N,13C; 6.0MM REMARK 210 HYALURONAN; 50MM PHOSPHATE REMARK 210 BUFFER; 150MM NACL; 90% H2O, 10% REMARK 210 D2O; 2.0MM CD44HABD U-15N,13C; REMARK 210 6.0MM HYALURONAN; 50MM PHOSPHATE REMARK 210 BUFFER; 150MM NACL; 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY; 3D_13C-SEPARATED_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 : CYANA 2.0 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 MET A 19 REMARK 465 ALA A 20 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 SER A 43 58.64 -162.99 REMARK 500 1 ASN A 57 19.26 59.81 REMARK 500 1 PRO A 61 -173.07 -69.70 REMARK 500 1 TYR A 79 171.92 -53.29 REMARK 500 1 HIS A 85 -175.42 178.40 REMARK 500 1 ILE A 91 -71.31 -113.24 REMARK 500 1 HIS A 92 65.83 -118.96 REMARK 500 1 PRO A 93 -170.10 -69.66 REMARK 500 1 ALA A 98 92.66 -68.38 REMARK 500 1 ASN A 101 -174.11 -59.14 REMARK 500 1 LEU A 107 125.27 -171.13 REMARK 500 1 THR A 108 176.16 -54.64 REMARK 500 1 THR A 111 -175.52 -60.92 REMARK 500 1 SER A 112 -172.18 -60.13 REMARK 500 1 GLN A 113 -178.67 -57.43 REMARK 500 1 TYR A 114 -175.69 -170.24 REMARK 500 1 ASP A 115 170.22 -54.49 REMARK 500 1 SER A 131 -168.29 -61.00 REMARK 500 1 THR A 133 80.56 -155.24 REMARK 500 1 PRO A 142 16.48 -69.78 REMARK 500 1 ASN A 149 -173.34 -62.39 REMARK 500 1 THR A 153 -74.37 -127.76 REMARK 500 1 GLU A 166 105.48 -167.01 REMARK 500 1 TYR A 169 73.37 -114.02 REMARK 500 2 TYR A 42 50.90 -116.39 REMARK 500 2 PHE A 56 30.49 -94.92 REMARK 500 2 PRO A 61 -171.48 -69.73 REMARK 500 2 CYS A 77 33.27 -94.95 REMARK 500 2 HIS A 85 168.49 177.67 REMARK 500 2 ILE A 88 84.06 -155.28 REMARK 500 2 HIS A 92 67.41 -118.69 REMARK 500 2 PRO A 93 -171.84 -69.68 REMARK 500 2 THR A 108 -72.22 -52.61 REMARK 500 2 ASN A 110 -68.15 -108.96 REMARK 500 2 ASP A 115 177.44 -57.87 REMARK 500 2 VAL A 132 -41.91 -142.69 REMARK 500 2 ALA A 138 61.17 63.82 REMARK 500 2 PRO A 142 16.55 -69.81 REMARK 500 2 ARG A 154 20.35 -144.97 REMARK 500 2 LYS A 158 144.08 -172.00 REMARK 500 2 ASN A 164 73.09 -166.58 REMARK 500 2 PRO A 165 -173.68 -69.78 REMARK 500 2 GLU A 166 109.89 -172.70 REMARK 500 2 ASP A 167 66.62 -116.06 REMARK 500 2 TYR A 169 73.05 -119.07 REMARK 500 2 PRO A 170 -179.04 -69.74 REMARK 500 3 CYS A 28 175.31 -55.31 REMARK 500 3 TYR A 42 93.71 -64.16 REMARK 500 3 PHE A 74 65.73 -175.38 REMARK 500 3 ILE A 88 121.60 -170.73 REMARK 500 REMARK 500 THIS ENTRY HAS 410 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2I83 A 21 178 UNP P16070 CD44_HUMAN 21 178 SEQADV 2I83 MET A 19 UNP P16070 INITIATING METHIONINE SEQADV 2I83 ALA A 20 UNP P16070 CLONING ARTIFACT SEQRES 1 A 160 MET ALA GLN ILE ASP LEU ASN ILE THR CYS ARG PHE ALA SEQRES 2 A 160 GLY VAL PHE HIS VAL GLU LYS ASN GLY ARG TYR SER ILE SEQRES 3 A 160 SER ARG THR GLU ALA ALA ASP LEU CYS LYS ALA PHE ASN SEQRES 4 A 160 SER THR LEU PRO THR MET ALA GLN MET GLU LYS ALA LEU SEQRES 5 A 160 SER ILE GLY PHE GLU THR CYS ARG TYR GLY PHE ILE GLU SEQRES 6 A 160 GLY HIS VAL VAL ILE PRO ARG ILE HIS PRO ASN SER ILE SEQRES 7 A 160 CYS ALA ALA ASN ASN THR GLY VAL TYR ILE LEU THR SER SEQRES 8 A 160 ASN THR SER GLN TYR ASP THR TYR CYS PHE ASN ALA SER SEQRES 9 A 160 ALA PRO PRO GLU GLU ASP CYS THR SER VAL THR ASP LEU SEQRES 10 A 160 PRO ASN ALA PHE ASP GLY PRO ILE THR ILE THR ILE VAL SEQRES 11 A 160 ASN ARG ASP GLY THR ARG TYR VAL GLN LYS GLY GLU TYR SEQRES 12 A 160 ARG THR ASN PRO GLU ASP ILE TYR PRO SER ASN PRO THR SEQRES 13 A 160 ASP ASP ASP VAL HELIX 1 1 SER A 45 ALA A 55 1 11 HELIX 2 2 THR A 62 LEU A 70 1 9 HELIX 3 3 CYS A 97 ASN A 101 5 5 SHEET 1 A 4 THR A 116 PHE A 119 0 SHEET 2 A 4 VAL A 33 LYS A 38 -1 N PHE A 34 O CYS A 118 SHEET 3 A 4 ILE A 22 ILE A 26 -1 N ASN A 25 O GLU A 37 SHEET 4 A 4 ILE A 143 ILE A 147 1 O THR A 146 N ILE A 26 SHEET 1 B 2 VAL A 87 ARG A 90 0 SHEET 2 B 2 GLY A 103 ILE A 106 -1 O TYR A 105 N ILE A 88 SSBOND 1 CYS A 28 CYS A 129 1555 1555 1.98 SSBOND 2 CYS A 53 CYS A 118 1555 1555 2.00 SSBOND 3 CYS A 77 CYS A 97 1555 1555 1.98 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