PDB Short entry for 5I8N HEADER METAL BINDING PROTEIN 19-FEB-16 5I8N TITLE SOLUTION STRUCTURE OF HUMAN CALCIUM-BINDING S100A9 (C3S) PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN S100-A9; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CALGRANULIN-B,CALPROTECTIN L1H SUBUNIT,LEUKOCYTE L1 COMPLEX COMPND 5 HEAVY CHAIN,MIGRATION INHIBITORY FACTOR-RELATED PROTEIN 14,P14,S100 COMPND 6 CALCIUM-BINDING PROTEIN A9; 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: S100A9, CAGB, CFAG, MRP14; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 866768; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-GOLD(DE3)PLYSS AG; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET21B KEYWDS CALGRANULIN B, HOMODIMER, CALCIUM-BINDING, MIGRATION INHIBITORY KEYWDS 2 FACTOR-RELATED PROTEIN 14 (MRP14), METAL BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR C.-C.CHANG,Y.CHIN REVDAT 3 14-JUN-23 5I8N 1 COMPND JRNL REMARK REVDAT 2 14-SEP-16 5I8N 1 JRNL REVDAT 1 31-AUG-16 5I8N 0 JRNL AUTH C.-C.CHANG,I.KHAN,K.-L.TSAI,H.LI,L.-W.YANG,R.-H.CHOU,C.YU JRNL TITL BLOCKING THE INTERACTION BETWEEN S100A9 AND RAGE V DOMAIN JRNL TITL 2 USING CHAPS MOLECULE: A NOVEL ROUTE TO DRUG DEVELOPMENT JRNL TITL 3 AGAINST CELL PROLIFERATION JRNL REF BIOCHIM.BIOPHYS.ACTA V.1864 1558 2016 JRNL REFN ISSN 0006-3002 JRNL PMID 27524699 JRNL DOI 10.1016/J.BBAPAP.2016.08.008 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1, CNS 1.1 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 (CNS), BRUNGER, ADAMS, CLORE, GROS, NILGES AND REMARK 3 READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5I8N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-FEB-16. REMARK 100 THE DEPOSITION ID IS D_1000217682. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : 0.1 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 50 MM TRIS, 100 MM SODIUM REMARK 210 CHLORIDE, 2 MM CALCIUM CHLORIDE, REMARK 210 2 MM [U-13C; U-15N] S100A9 REMARK 210 PROTEIN (C3S), , 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCA; 3D REMARK 210 HN(CO)CA; 3D HNCACB; 3D CBCA(CO) REMARK 210 NH; 3D HNCO; 3D HN(CA)CO; 3D REMARK 210 C(CO)NH; 3D H(CCO)NH; 3D HCCH- REMARK 210 TOCSY; 3D HBHA(CO)NH; 3D 1H-15N REMARK 210 NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ REMARK 210 SPECTROMETER MODEL : VNMRS REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMRJ 2.3, SPARKY 3.1, TALOS, REMARK 210 CNS 1.1 REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 O PRO B 107 H GLU B 111 1.56 REMARK 500 O PRO A 107 H GLU A 111 1.56 REMARK 500 H SER A 75 OE2 GLU A 78 1.58 REMARK 500 H SER B 75 OE2 GLU B 78 1.58 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 MET A 5 150.33 -47.70 REMARK 500 1 PRO A 29 39.78 -75.13 REMARK 500 1 ASP A 67 78.37 -68.50 REMARK 500 1 PRO A 107 151.77 -48.45 REMARK 500 1 LEU A 109 -49.74 -145.48 REMARK 500 1 MET B 5 150.84 -47.44 REMARK 500 1 PRO B 29 39.76 -75.23 REMARK 500 1 ASP B 67 78.08 -68.53 REMARK 500 1 PRO B 107 151.69 -48.56 REMARK 500 1 LEU B 109 -49.89 -145.47 REMARK 500 2 SER A 3 55.25 -140.16 REMARK 500 2 LYS A 4 -138.50 -137.46 REMARK 500 2 PRO A 29 37.96 -75.42 REMARK 500 2 ASP A 67 78.93 -66.50 REMARK 500 2 GLU A 99 21.55 -77.65 REMARK 500 2 SER B 3 55.18 -140.25 REMARK 500 2 LYS B 4 -138.47 -137.43 REMARK 500 2 PRO B 29 38.24 -75.65 REMARK 500 2 ASP B 67 78.43 -66.76 REMARK 500 2 GLU B 99 21.79 -77.89 REMARK 500 3 LYS A 4 6.53 -150.67 REMARK 500 3 MET A 5 139.91 -38.84 REMARK 500 3 PRO A 29 48.24 -76.83 REMARK 500 3 ASP A 67 87.51 -59.50 REMARK 500 3 HIS A 95 67.45 -109.29 REMARK 500 3 LYS B 4 6.78 -150.53 REMARK 500 3 MET B 5 139.84 -39.18 REMARK 500 3 PRO B 29 48.32 -77.02 REMARK 500 3 ASP B 67 87.55 -59.41 REMARK 500 3 HIS B 95 67.27 -109.41 REMARK 500 4 MET A 5 133.57 -36.89 REMARK 500 4 ASP A 67 77.84 -64.27 REMARK 500 4 MET B 5 133.66 -37.45 REMARK 500 4 ASP B 67 78.06 -64.25 REMARK 500 5 SER A 3 135.43 69.54 REMARK 500 5 HIS A 28 95.34 -63.98 REMARK 500 5 PRO A 29 31.55 -74.70 REMARK 500 5 ASP A 67 78.36 -63.69 REMARK 500 5 SER B 3 135.27 69.22 REMARK 500 5 HIS B 28 95.42 -63.93 REMARK 500 5 PRO B 29 31.69 -74.73 REMARK 500 5 ASP B 67 79.30 -63.68 REMARK 500 6 THR A 2 -83.01 -96.60 REMARK 500 6 LYS A 4 -47.11 -169.72 REMARK 500 6 MET A 5 116.64 -23.10 REMARK 500 6 ASP A 67 94.72 -63.60 REMARK 500 6 HIS A 95 71.03 -102.44 REMARK 500 6 LEU A 109 -58.56 -141.36 REMARK 500 6 THR B 2 -82.60 -96.98 REMARK 500 6 LYS B 4 -47.18 -169.98 REMARK 500 REMARK 500 THIS ENTRY HAS 85 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PRO A 29 ASP A 30 1 -147.94 REMARK 500 GLY A 108 LEU A 109 1 145.17 REMARK 500 PRO B 29 ASP B 30 1 -147.87 REMARK 500 GLY B 108 LEU B 109 1 145.16 REMARK 500 HIS A 28 PRO A 29 2 -149.97 REMARK 500 PRO B 29 ASP B 30 2 -149.97 REMARK 500 HIS A 28 PRO A 29 3 -149.70 REMARK 500 PRO A 29 ASP A 30 3 -149.93 REMARK 500 HIS B 28 PRO B 29 3 -149.98 REMARK 500 PRO B 29 ASP B 30 3 -150.00 REMARK 500 PRO A 29 ASP A 30 4 -149.06 REMARK 500 PRO B 29 ASP B 30 4 -148.72 REMARK 500 PRO A 29 ASP A 30 5 -146.07 REMARK 500 PRO B 29 ASP B 30 5 -146.04 REMARK 500 GLY A 97 ASP A 98 7 144.67 REMARK 500 GLY B 97 ASP B 98 7 144.51 REMARK 500 HIS A 28 PRO A 29 8 -146.05 REMARK 500 PRO A 29 ASP A 30 8 -149.33 REMARK 500 HIS B 28 PRO B 29 8 -145.95 REMARK 500 PRO B 29 ASP B 30 8 -149.32 REMARK 500 GLY A 97 ASP A 98 9 147.47 REMARK 500 GLY A 108 LEU A 109 9 148.81 REMARK 500 GLY B 97 ASP B 98 9 147.77 REMARK 500 GLY B 108 LEU B 109 9 148.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 26738 RELATED DB: BMRB REMARK 900 RELATED ID: 30017 RELATED DB: BMRB DBREF 5I8N A 1 114 UNP P06702 S10A9_HUMAN 1 114 DBREF 5I8N B 1 114 UNP P06702 S10A9_HUMAN 1 114 SEQADV 5I8N SER A 3 UNP P06702 CYS 3 ENGINEERED MUTATION SEQADV 5I8N SER B 3 UNP P06702 CYS 3 ENGINEERED MUTATION SEQRES 1 A 114 MET THR SER LYS MET SER GLN LEU GLU ARG ASN ILE GLU SEQRES 2 A 114 THR ILE ILE ASN THR PHE HIS GLN TYR SER VAL LYS LEU SEQRES 3 A 114 GLY HIS PRO ASP THR LEU ASN GLN GLY GLU PHE LYS GLU SEQRES 4 A 114 LEU VAL ARG LYS ASP LEU GLN ASN PHE LEU LYS LYS GLU SEQRES 5 A 114 ASN LYS ASN GLU LYS VAL ILE GLU HIS ILE MET GLU ASP SEQRES 6 A 114 LEU ASP THR ASN ALA ASP LYS GLN LEU SER PHE GLU GLU SEQRES 7 A 114 PHE ILE MET LEU MET ALA ARG LEU THR TRP ALA SER HIS SEQRES 8 A 114 GLU LYS MET HIS GLU GLY ASP GLU GLY PRO GLY HIS HIS SEQRES 9 A 114 HIS LYS PRO GLY LEU GLY GLU GLY THR PRO SEQRES 1 B 114 MET THR SER LYS MET SER GLN LEU GLU ARG ASN ILE GLU SEQRES 2 B 114 THR ILE ILE ASN THR PHE HIS GLN TYR SER VAL LYS LEU SEQRES 3 B 114 GLY HIS PRO ASP THR LEU ASN GLN GLY GLU PHE LYS GLU SEQRES 4 B 114 LEU VAL ARG LYS ASP LEU GLN ASN PHE LEU LYS LYS GLU SEQRES 5 B 114 ASN LYS ASN GLU LYS VAL ILE GLU HIS ILE MET GLU ASP SEQRES 6 B 114 LEU ASP THR ASN ALA ASP LYS GLN LEU SER PHE GLU GLU SEQRES 7 B 114 PHE ILE MET LEU MET ALA ARG LEU THR TRP ALA SER HIS SEQRES 8 B 114 GLU LYS MET HIS GLU GLY ASP GLU GLY PRO GLY HIS HIS SEQRES 9 B 114 HIS LYS PRO GLY LEU GLY GLU GLY THR PRO HELIX 1 AA1 SER A 6 VAL A 24 1 19 HELIX 2 AA2 LYS A 25 GLY A 27 5 3 HELIX 3 AA3 GLN A 34 ASP A 44 1 11 HELIX 4 AA4 LEU A 49 LYS A 54 1 6 HELIX 5 AA5 ASN A 55 ASP A 67 1 13 HELIX 6 AA6 PHE A 76 MET A 94 1 19 HELIX 7 AA7 SER B 6 VAL B 24 1 19 HELIX 8 AA8 LYS B 25 GLY B 27 5 3 HELIX 9 AA9 GLN B 34 ASP B 44 1 11 HELIX 10 AB1 LEU B 49 LYS B 54 1 6 HELIX 11 AB2 ASN B 55 ASP B 67 1 13 HELIX 12 AB3 PHE B 76 MET B 94 1 19 SHEET 1 AA1 2 THR A 31 ASN A 33 0 SHEET 2 AA1 2 GLN A 73 SER A 75 -1 O LEU A 74 N LEU A 32 SHEET 1 AA2 2 THR B 31 ASN B 33 0 SHEET 2 AA2 2 GLN B 73 SER B 75 -1 O LEU B 74 N LEU B 32 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 0.001000 0.000000 0.000000 0.00000 SCALE2 0.000000 0.001000 0.000000 0.00000 SCALE3 0.000000 0.000000 0.001000 0.00000