HEADER CALCIUM-BINDING PROTEIN 04-AUG-95 1CDN TITLE SOLUTION STRUCTURE OF (CD2+)1-CALBINDIN D9K REVEALS DETAILS OF THE TITLE 2 STEPWISE STRUCTURAL CHANGES ALONG THE APO--> (CA2+)II1--> (CA2+)I,II2 TITLE 3 BINDING PATHWAY COMPND MOL_ID: 1; COMPND 2 MOLECULE: CALBINDIN D9K; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: INTESTINAL CALCIUM-BINDING PROTEIN, ICBP, ICABP, CABP9K, COMPND 5 S100D; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: BOVINE MINOR A FORM, CADMIUM-HALF-SATURATED, CADMIUM COMPND 9 ION IS BOUND IN C-TERMINAL SITE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: CATTLE; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 GENE: ICABP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PICB1; SOURCE 9 EXPRESSION_SYSTEM_GENE: ICABP KEYWDS EF-HAND, CALCIUM-BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 24 AUTHOR M.AKKE,S.FORSEN,W.J.CHAZIN REVDAT 3 03-NOV-21 1CDN 1 REMARK SEQADV REVDAT 2 24-FEB-09 1CDN 1 VERSN REVDAT 1 14-NOV-95 1CDN 0 JRNL AUTH M.AKKE,S.FORSEN,W.J.CHAZIN JRNL TITL SOLUTION STRUCTURE OF (CD2+)1-CALBINDIN D9K REVEALS DETAILS JRNL TITL 2 OF THE STEPWISE STRUCTURAL CHANGES ALONG THE JRNL TITL 3 APO-->(CA2+)II1-->(CA2+)I,II2 BINDING PATHWAY. JRNL REF J.MOL.BIOL. V. 252 102 1995 JRNL REFN ISSN 0022-2836 JRNL PMID 7666423 JRNL DOI 10.1006/JMBI.1995.0478 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH N.J.SKELTON,J.KOERDEL,W.J.CHAZIN REMARK 1 TITL DETERMINATION OF THE SOLUTION STRUCTURE OF APO CALBINDIN D9K REMARK 1 TITL 2 BY NMR SPECTROSCOPY REMARK 1 REF J.MOL.BIOL. V. 249 441 1995 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 2 REMARK 1 AUTH J.KORDEL,N.J.SKELTON,M.AKKE,W.J.CHAZIN REMARK 1 TITL HIGH-RESOLUTION SOLUTION STRUCTURE OF CALCIUM-LOADED REMARK 1 TITL 2 CALBINDIN D9K REMARK 1 REF J.MOL.BIOL. V. 231 711 1993 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 3 REMARK 1 AUTH M.AKKE,S.FORSEN,W.J.CHAZIN REMARK 1 TITL MOLECULAR BASIS FOR CO-OPERATIVITY IN CA2+ BINDING IN REMARK 1 TITL 2 CALBINDIN D9K. 1H NUCLEAR MAGNETIC RESONANCE STUDIES OF REMARK 1 TITL 3 (CD2+)1-BOVINE CALBINDIN D9K REMARK 1 REF J.MOL.BIOL. V. 220 173 1991 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISGEO, AMBER 4.0 REMARK 3 AUTHORS : HAVEL,WUTHRICH (DISGEO), REMARK 3 PEARLMAN,CASE,CALDWELL,SEIBEL,SINGH,WEINER,KOLLMAN REMARK 3 (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1CDN COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000172259. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : NULL REMARK 210 PH : NULL REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : NULL REMARK 210 SPECTROMETER MODEL : NULL REMARK 210 SPECTROMETER MANUFACTURER : NULL REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : NULL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 24 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL 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 1-24 REMARK 465 RES C SSSEQI REMARK 465 MET A 0 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 3 SER A 74 -39.93 64.06 REMARK 500 4 GLU A 17 -46.20 78.57 REMARK 500 4 SER A 74 -70.91 -178.18 REMARK 500 5 SER A 44 -93.12 34.07 REMARK 500 5 ASP A 58 -45.50 -139.81 REMARK 500 5 SER A 74 -54.32 -159.61 REMARK 500 6 GLU A 17 116.24 60.74 REMARK 500 6 LYS A 41 -88.18 20.83 REMARK 500 6 SER A 44 -136.08 52.25 REMARK 500 6 SER A 74 -62.31 73.14 REMARK 500 7 SER A 74 73.42 -168.54 REMARK 500 8 LYS A 16 91.27 -61.32 REMARK 500 8 GLU A 17 -41.49 77.53 REMARK 500 8 LEU A 40 -73.76 51.20 REMARK 500 8 LYS A 55 89.60 -65.08 REMARK 500 8 ASP A 58 -42.51 -137.01 REMARK 500 9 GLU A 17 -47.48 -154.62 REMARK 500 9 SER A 44 -59.49 -26.54 REMARK 500 9 ASN A 56 48.81 28.92 REMARK 500 10 SER A 44 -146.59 55.10 REMARK 500 11 LYS A 41 -151.63 -114.94 REMARK 500 11 SER A 44 -102.46 52.22 REMARK 500 11 ASN A 56 38.28 39.85 REMARK 500 11 SER A 74 -94.60 45.27 REMARK 500 12 LYS A 16 44.90 -79.10 REMARK 500 12 GLU A 17 -51.17 -170.72 REMARK 500 12 SER A 44 -111.22 35.51 REMARK 500 12 ASN A 56 41.19 37.91 REMARK 500 13 GLU A 17 -42.44 -139.94 REMARK 500 13 ASP A 54 72.83 -67.41 REMARK 500 13 LYS A 55 99.77 -57.30 REMARK 500 13 ASN A 56 5.32 95.75 REMARK 500 13 SER A 74 57.05 -160.76 REMARK 500 14 GLU A 17 -45.76 -155.29 REMARK 500 14 SER A 74 -47.82 -173.85 REMARK 500 15 PHE A 36 56.91 -145.34 REMARK 500 15 ASN A 56 32.12 -154.28 REMARK 500 16 GLU A 17 -37.21 73.20 REMARK 500 16 SER A 44 -162.21 57.00 REMARK 500 16 ASP A 54 73.89 -116.42 REMARK 500 16 ASN A 56 32.32 -148.20 REMARK 500 16 ASP A 58 -18.79 -145.92 REMARK 500 16 SER A 74 47.25 -77.71 REMARK 500 17 GLU A 17 109.71 54.85 REMARK 500 17 SER A 44 -105.00 55.78 REMARK 500 17 SER A 74 -63.76 71.21 REMARK 500 18 SER A 44 -89.57 -96.69 REMARK 500 18 SER A 74 47.20 -76.74 REMARK 500 19 GLU A 17 -43.49 -141.93 REMARK 500 19 ASN A 56 35.71 37.28 REMARK 500 REMARK 500 THIS ENTRY HAS 62 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 PHE A 50 0.09 SIDE CHAIN REMARK 500 4 PHE A 36 0.09 SIDE CHAIN REMARK 500 5 PHE A 50 0.08 SIDE CHAIN REMARK 500 6 PHE A 50 0.09 SIDE CHAIN REMARK 500 8 PHE A 50 0.11 SIDE CHAIN REMARK 500 9 TYR A 13 0.08 SIDE CHAIN REMARK 500 9 PHE A 50 0.10 SIDE CHAIN REMARK 500 10 PHE A 50 0.09 SIDE CHAIN REMARK 500 11 PHE A 50 0.10 SIDE CHAIN REMARK 500 12 PHE A 50 0.11 SIDE CHAIN REMARK 500 13 TYR A 13 0.07 SIDE CHAIN REMARK 500 15 PHE A 50 0.09 SIDE CHAIN REMARK 500 16 TYR A 13 0.10 SIDE CHAIN REMARK 500 16 PHE A 50 0.09 SIDE CHAIN REMARK 500 17 PHE A 36 0.10 SIDE CHAIN REMARK 500 17 PHE A 50 0.08 SIDE CHAIN REMARK 500 18 PHE A 50 0.09 SIDE CHAIN REMARK 500 19 PHE A 50 0.10 SIDE CHAIN REMARK 500 20 TYR A 13 0.12 SIDE CHAIN REMARK 500 20 PHE A 50 0.09 SIDE CHAIN REMARK 500 21 PHE A 50 0.10 SIDE CHAIN REMARK 500 22 TYR A 13 0.08 SIDE CHAIN REMARK 500 23 TYR A 13 0.07 SIDE CHAIN REMARK 500 23 PHE A 50 0.10 SIDE CHAIN REMARK 500 24 PHE A 50 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: LOA REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: LOB REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NULL DBREF 1CDN A 1 75 UNP P02633 S100G_BOVIN 4 78 SEQADV 1CDN GLY A 43 UNP P02633 PRO 46 ENGINEERED MUTATION SEQRES 1 A 76 MET LYS SER PRO GLU GLU LEU LYS GLY ILE PHE GLU LYS SEQRES 2 A 76 TYR ALA ALA LYS GLU GLY ASP PRO ASN GLN LEU SER LYS SEQRES 3 A 76 GLU GLU LEU LYS LEU LEU LEU GLN THR GLU PHE PRO SER SEQRES 4 A 76 LEU LEU LYS GLY GLY SER THR LEU ASP GLU LEU PHE GLU SEQRES 5 A 76 GLU LEU ASP LYS ASN GLY ASP GLY GLU VAL SER PHE GLU SEQRES 6 A 76 GLU PHE GLN VAL LEU VAL LYS LYS ILE SER GLN HELIX 1 1 PRO A 3 GLU A 17 1 15 HELIX 2 2 LYS A 25 GLU A 35 1 11 HELIX 3 3 LEU A 46 LEU A 53 1 8 HELIX 4 4 PHE A 63 ILE A 73 1 11 SHEET 1 A 2 GLN A 22 LEU A 23 0 SHEET 2 A 2 VAL A 61 SER A 62 -1 O VAL A 61 N LEU A 23 SITE 1 LOA 14 ALA A 14 ALA A 15 LYS A 16 GLU A 17 SITE 2 LOA 14 GLY A 18 ASP A 19 PRO A 20 ASN A 21 SITE 3 LOA 14 GLN A 22 LEU A 23 SER A 24 LYS A 25 SITE 4 LOA 14 GLU A 26 GLU A 27 SITE 1 LOB 12 ASP A 54 LYS A 55 ASN A 56 GLY A 57 SITE 2 LOB 12 ASP A 58 GLY A 59 GLU A 60 VAL A 61 SITE 3 LOB 12 SER A 62 PHE A 63 GLU A 64 GLU A 65 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