HEADER SIGNALING PROTEIN 20-SEP-99 1D1O TITLE COOPERATIVITY IN EF-HAND CA2+-BINDING PROTEINS: EVIDENCE OF SITE-SITE TITLE 2 COMMUNICATION FROM BINDING-INDUCED CHANGES IN STRUCTURE AND DYNAMICS TITLE 3 OF N56A CALBINDIN D9K COMPND MOL_ID: 1; COMPND 2 MOLECULE: CALBINDIN D9K; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CALBINDIN D9K; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: CATTLE; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS EF-HAND, CALCIUM-BINDING PROTEIN, SIGNAL TRANSDUCTION, SIGNALING KEYWDS 2 PROTEIN EXPDTA SOLUTION NMR NUMMDL 24 AUTHOR L.MALER,J.BLANKENSHIP,M.RANCE,W.J.CHAZIN REVDAT 5 22-MAY-24 1D1O 1 REMARK REVDAT 4 16-FEB-22 1D1O 1 REMARK SEQADV REVDAT 3 24-FEB-09 1D1O 1 VERSN REVDAT 2 23-MAY-00 1D1O 1 REMARK REVDAT 1 08-MAR-00 1D1O 0 JRNL AUTH L.MALER,J.BLANKENSHIP,M.RANCE,W.J.CHAZIN JRNL TITL SITE-SITE COMMUNICATION IN THE EF-HAND CA2+-BINDING PROTEIN JRNL TITL 2 CALBINDIN D9K. JRNL REF NAT.STRUCT.BIOL. V. 7 245 2000 JRNL REFN ISSN 1072-8368 JRNL PMID 10700285 JRNL DOI 10.1038/73369 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.AKKE,S.FORSEN,W.J.CHAZIN REMARK 1 TITL SOLUTION STRUCTURE OF (CD2+)1-CALBINDIN D9K REVEALS DETAILS REMARK 1 TITL 2 OF THE STEPWISE STRUCTURAL CHANGES ALONG THE REMARK 1 TITL 3 APO-(CA2+)1-(CA2+)2 BINDING PATHWAY. REMARK 1 REF J.MOL.BIOL. V. 252 102 1995 REMARK 1 REFN ISSN 0022-2836 REMARK 1 DOI 10.1006/JMBI.1995.0478 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 DOI 10.1006/JMBI.1993.1322 REMARK 1 REFERENCE 3 REMARK 1 AUTH N.J.SKELTON,J.KORDEL,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 DOI 10.1006/JMBI.1995.0308 REMARK 1 REFERENCE 4 REMARK 1 AUTH B.WIMBERLY,E.THULIN,W.J.CHAZIN REMARK 1 TITL CHARACTERIZATION OF THE N-TERMINAL HALF-SATURATED STATE OF REMARK 1 TITL 2 CALBINDIN D9K: NMR STUDIES OF THE N56A MUTANT. REMARK 1 REF PROTEIN SCI. V. 4 1045 1995 REMARK 1 REFN ISSN 0961-8368 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FELIX 97.0, AMBER 4.1 REMARK 3 AUTHORS : MSI, SAN DIEGO, CA (FELIX), PEARLMAN, CASE, REMARK 3 CALDWELL, ROSS, CHEATHAM, FERGUSON, SEIBEL, SINGH, REMARK 3 WEINER, KOLLMAN (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NMR REFINEMENT WAS BASED ON A TOTAL OF REMARK 3 910 NOE-DERIVED DISTANCE CONSTRAINTS AND 78 TORSION ANGLE REMARK 3 CONSTRAINTS. SIMULATED ANNEALING CYCLE OF 20 PS HEATING TO 1200 REMARK 3 K. REMARK 4 REMARK 4 1D1O COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-SEP-99. REMARK 100 THE DEPOSITION ID IS D_1000009713. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300; 300 REMARK 210 PH : 6.0; 6.0 REMARK 210 IONIC STRENGTH : 0; 0 REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 4 MM N56A-CALBINDIN D9K; 4 MM REMARK 210 15N-LABELED N56A-CALBINDIN D9K; REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; HSQC-J REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX; DRX; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DIANA 2.8 REMARK 210 METHOD USED : DISTANCE GEOMETRY FOLLOWED BY REMARK 210 SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 24 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH ACCEPTABLE REMARK 210 MOLECULAR ENEGIES WERE ORDERED REMARK 210 BY LEAST RESTRAINT VIOLATIONS. REMARK 210 THE 24 BEST CONFORMERS WERE REMARK 210 SELECTED TO FACILITATE REMARK 210 COMPARISON TO PREVIOUS REMARK 210 STRUCTURES OF THE PROTEIN AND REMARK 210 BECAUSE THIS SURPASSES THE REMARK 210 STATISTICAL REQUIREMENT TO REMARK 210 REPRESENT ALL OF CONFORMATIONAL REMARK 210 SPACE CONSISTENT WITH THE DATA. REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: 1H RESONANCE ASIGNMENTS WERE REPORTED IN THE PROTEIN REMARK 210 SCIENCE PAPER BY WIMBERLY ET AL. A 3D 15N SPARATED TOCSY WAS REMARK 210 RECORDED TO CONFIRM THESE ASSIGNMENTS AND ASSIGN THE 15N REMARK 210 RESONANCES. 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: 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 PRO A 37 -36.24 -39.24 REMARK 500 1 LYS A 41 -65.80 62.98 REMARK 500 1 ASP A 54 45.15 -81.08 REMARK 500 1 ASP A 58 -57.67 66.43 REMARK 500 1 SER A 74 -44.16 76.25 REMARK 500 2 PRO A 37 71.72 -69.69 REMARK 500 2 SER A 38 -73.55 -170.63 REMARK 500 2 LYS A 41 -56.75 49.02 REMARK 500 2 ASP A 58 54.49 34.16 REMARK 500 2 SER A 74 -46.88 78.23 REMARK 500 3 PRO A 37 75.55 -66.23 REMARK 500 3 SER A 38 -42.93 173.59 REMARK 500 3 LEU A 40 40.66 -169.33 REMARK 500 3 ASP A 54 43.32 -78.81 REMARK 500 3 ALA A 56 -54.06 177.43 REMARK 500 3 ASP A 58 -59.70 68.64 REMARK 500 4 ASN A 21 38.79 -159.83 REMARK 500 4 SER A 38 -40.08 75.18 REMARK 500 4 MET A 43 -122.86 -87.61 REMARK 500 4 ASP A 54 48.23 -80.55 REMARK 500 4 ASP A 58 75.10 0.34 REMARK 500 5 ASN A 21 53.74 -148.76 REMARK 500 5 PRO A 37 72.15 -69.31 REMARK 500 5 SER A 38 -35.69 -178.84 REMARK 500 5 LEU A 40 64.63 -68.59 REMARK 500 5 LYS A 41 77.66 -65.62 REMARK 500 5 ASP A 54 45.80 -80.24 REMARK 500 5 ALA A 56 -55.00 -172.26 REMARK 500 6 ASN A 21 42.08 -143.59 REMARK 500 6 PRO A 37 79.83 -22.04 REMARK 500 6 LYS A 41 -54.67 68.06 REMARK 500 6 SER A 44 -61.96 64.68 REMARK 500 6 THR A 45 -33.97 -37.05 REMARK 500 6 SER A 74 -66.25 69.55 REMARK 500 7 ASP A 19 115.18 -39.69 REMARK 500 7 GLN A 22 142.96 -173.75 REMARK 500 7 PHE A 36 73.86 -112.40 REMARK 500 7 SER A 38 -41.12 66.79 REMARK 500 7 LEU A 40 9.56 -53.39 REMARK 500 7 ASP A 54 43.61 -80.87 REMARK 500 7 SER A 74 -57.92 73.06 REMARK 500 8 GLN A 22 140.20 -171.69 REMARK 500 8 SER A 38 -50.78 70.98 REMARK 500 8 MET A 43 -72.39 -67.12 REMARK 500 8 ALA A 56 -36.94 176.83 REMARK 500 8 SER A 74 -57.70 65.82 REMARK 500 9 ASN A 21 38.56 -144.47 REMARK 500 9 SER A 38 -68.48 -160.53 REMARK 500 9 LEU A 40 -44.79 -179.04 REMARK 500 9 LYS A 41 -68.31 61.15 REMARK 500 REMARK 500 THIS ENTRY HAS 149 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 2 PHE A 10 0.08 SIDE CHAIN REMARK 500 3 PHE A 10 0.09 SIDE CHAIN REMARK 500 7 PHE A 10 0.09 SIDE CHAIN REMARK 500 8 PHE A 10 0.09 SIDE CHAIN REMARK 500 8 PHE A 36 0.09 SIDE CHAIN REMARK 500 10 PHE A 36 0.08 SIDE CHAIN REMARK 500 11 PHE A 10 0.09 SIDE CHAIN REMARK 500 13 PHE A 36 0.10 SIDE CHAIN REMARK 500 14 PHE A 10 0.09 SIDE CHAIN REMARK 500 15 PHE A 10 0.09 SIDE CHAIN REMARK 500 16 PHE A 36 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2BCB RELATED DB: PDB REMARK 900 NMR SOLUTION STRUCTURE OF CA2+-LOADED CALBINDIN D9K REMARK 900 RELATED ID: 1CDN RELATED DB: PDB REMARK 900 NMR SOLUTION STRUCTURE OF (CD2+)1 CALBINDIN D9K REMARK 900 RELATED ID: 1CLB RELATED DB: PDB REMARK 900 NMR SOLUTION STRUCTURE OF APO CALBINDIN D9K DBREF 1D1O A 1 75 UNP P02633 S100G_BOVIN 5 79 SEQADV 1D1O MET A 43 UNP P02633 PRO 47 CONFLICT SEQADV 1D1O ALA A 56 UNP P02633 ASN 60 CONFLICT SEQRES 1 A 75 LYS SER PRO GLU GLU LEU LYS GLY ILE PHE GLU LYS TYR SEQRES 2 A 75 ALA ALA LYS GLU GLY ASP PRO ASN GLN LEU SER LYS GLU SEQRES 3 A 75 GLU LEU LYS LEU LEU LEU GLN THR GLU PHE PRO SER LEU SEQRES 4 A 75 LEU LYS GLY MET SER THR LEU ASP GLU LEU PHE GLU GLU SEQRES 5 A 75 LEU ASP LYS ALA GLY ASP GLY GLU VAL SER PHE GLU GLU SEQRES 6 A 75 PHE GLN VAL LEU VAL LYS LYS ILE SER GLN HELIX 1 1 LYS A 1 GLU A 17 1 17 HELIX 2 2 LYS A 25 PHE A 36 1 12 HELIX 3 3 GLY A 42 SER A 44 5 3 HELIX 4 4 THR A 45 ASP A 54 1 10 HELIX 5 5 PHE A 63 SER A 74 1 12 SHEET 1 A 2 GLN A 22 SER A 24 0 SHEET 2 A 2 GLU A 60 SER A 62 -1 N VAL A 61 O LEU A 23 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