HEADER METAL BINDING PROTEIN 04-SEP-01 1JWD TITLE CA2+-INDUCED STRUCTURAL CHANGES IN CALCYCLIN: HIGH-RESOLUTION SOLUTION TITLE 2 STRUCTURE OF CA2+-BOUND CALCYCLIN. COMPND MOL_ID: 1; COMPND 2 MOLECULE: CALCYCLIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: LUNG 10 KDA PROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYCTOLAGUS CUNICULUS; SOURCE 3 ORGANISM_COMMON: RABBIT; SOURCE 4 ORGANISM_TAXID: 9986; SOURCE 5 ORGAN: LUNG; SOURCE 6 GENE: R-S100A6; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: DE3; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET1120 KEYWDS CA(2+)-BINDING PROTEIN, S100 PROTEIN, EF-HAND, S100A6, METAL BINDING KEYWDS 2 PROTEIN EXPDTA SOLUTION NMR NUMMDL 22 AUTHOR L.MALER,M.SASTRY,W.J.CHAZIN REVDAT 4 23-FEB-22 1JWD 1 REMARK REVDAT 3 24-FEB-09 1JWD 1 VERSN REVDAT 2 01-APR-03 1JWD 1 JRNL REVDAT 1 27-MAR-02 1JWD 0 JRNL AUTH L.MALER,M.SASTRY,W.J.CHAZIN JRNL TITL A STRUCTURAL BASIS FOR S100 PROTEIN SPECIFICITY DERIVED FROM JRNL TITL 2 COMPARATIVE ANALYSIS OF APO AND CA(2+)-CALCYCLIN JRNL REF J.MOL.BIOL. V. 317 279 2002 JRNL REFN ISSN 0022-2836 JRNL PMID 11902843 JRNL DOI 10.1006/JMBI.2002.5421 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH L.MALER,B.C.M.POTTS,W.J.CHAZIN REMARK 1 TITL HIGH RESOLUTION SOLUTION STRUCTURE OF APO CALCYCLIN AND REMARK 1 TITL 2 STRUCTURAL VARIATIONS IN THE S100 FAMILY OF CALCIUM-BINDING REMARK 1 TITL 3 PROTEINS. REMARK 1 REF J.BIOMOL.NMR V. 13 233 1999 REMARK 1 REFN ISSN 0925-2738 REMARK 1 DOI 10.1023/A:1008315517955 REMARK 1 REFERENCE 2 REMARK 1 AUTH M.SASTRY,R.R.KETCHEM,O.CRESCENZI,C.WEBER,M.J.LUBIENSKI, REMARK 1 AUTH 2 H.HIDAKA,W.J.CHAZIN REMARK 1 TITL THE THREE-DIMENISONAL STRUCTURE OF CA(2+)-BOUND CALCYCLIN: REMARK 1 TITL 2 IMPLICATIONS FOR CA(2+)-SIGNAL TRANSDUCTION BY S100 REMARK 1 TITL 3 PROTEINS. REMARK 1 REF STRUCTURE V. 6 223 1998 REMARK 1 REFN ISSN 0969-2126 REMARK 1 DOI 10.1016/S0969-2126(98)00023-9 REMARK 1 REFERENCE 3 REMARK 1 AUTH B.C.POTTS,J.SMITH,M.AKKE,T.J.MACKE,K.OKAZAKI,H.HIDAKA, REMARK 1 AUTH 2 D.A.CHASE,W.J.CHAZIN REMARK 1 TITL THE STRUCTURE OF CALCYCLIN REVEALS A NOVEL HOMODIMERIC FOLD REMARK 1 TITL 2 FOR S100 CA(2+)-BINDING PROTEINS. REMARK 1 REF NAT.STRUCT.BIOL. V. 2 790 1995 REMARK 1 REFN ISSN 1072-8368 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FELIX 97, AMBER 4.1 REMARK 3 AUTHORS : MSI (FELIX), PEARLMANN, CASE, CALDWELL, ROSS, REMARK 3 CHEATHAM III, FERGUSON, SEIBEL, SINGH, WEINER & REMARK 3 KOLLMAN (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE CALCULATIONS WERE CARRIED OUT USING REMARK 3 A TOTAL OF 3104 DISTANCE AND 294 TORSION ANGLE CONSTRAINTS. REMARK 3 STARTING STRUCTURES WERE GENERATED AS MONOMERS (ONE CHAIN) WITH REMARK 3 NO INTERSUBUNIT CONSTRAINTS USING DISTANCE GEOMETRY FOLLOWED BY REMARK 3 RESTRAINED MOLECULAR DYNAMICS (RMD). THE DIMER STRUCTURES WERE REMARK 3 GENERATED BY RMD DOCKING DRIVEN BY THE INTERSUBUNIT NOES USING REMARK 3 TWO ARBITRARILY SELECTED STARTING SUBUNIT STRUCTURES. EACH DIMER REMARK 3 WAS FURTHER REFINED BY RMD WITH ALL CONSTRAINTS. REMARK 4 REMARK 4 1JWD COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-SEP-01. REMARK 100 THE DEPOSITION ID IS D_1000014261. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 30 MM CACL2 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2 MM CALCYCLIN, 50 MM TRIS REMARK 210 BUFFER, 30 MM CACL2; 2 MM 15N, REMARK 210 13C-ENRICHED CALCYCLIN, 50 MM REMARK 210 TRIS-BUFFER, 0.05% NAN3, 30 MM REMARK 210 CACL2; 1:1 15N,13C-ENRICHED: REMARK 210 UNLABLED CALCYCLIN, 50 MM TRIS- REMARK 210 BUFFER, 0.05% NAN3, 30 MM CACL2; REMARK 210 15N-ENRICHED CALCYCLIN, 50 MM REMARK 210 TRIS-BUFFER, 0.05% NAN3, 30 MM REMARK 210 CACL2; 10% 13C-ENRICHED REMARK 210 CALCYCLIN, 50 MM TRIS-BUFFER, REMARK 210 0.05% NAN3, 30 MM CACL2 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; 3D_15N- REMARK 210 SEPARATED_NOESY; 3D_HACAHB; 3D_ REMARK 210 13C-FILTER,13C-EDITED_NOESY; 2D_ REMARK 210 13C_HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ; 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : DMX; DRX; AMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DIANA 2.8, FINDFAM 1.0 REMARK 210 METHOD USED : DISTANCE GEOMETRY, RESTRAINED REMARK 210 MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 22 REMARK 210 CONFORMERS, SELECTION CRITERIA : THE PROGRAM FINDFAM WAS USED TO REMARK 210 ESTABLISH THAT THE NUMBER OF REMARK 210 STRUCTURES REQUIRED TO REMARK 210 ACCURATELY REPRESENT THE REMARK 210 ENSEMBLE WAS LESS THAN 22 (THE REMARK 210 NUMBER SELECTED TO REPRESENT REMARK 210 PREVIOUS S100A6 ENSEMBLES). REMARK 210 STRUCTURES WERE ORDERED BY REMARK 210 LOWEST RESTRAINT VIOLATIONS, REMARK 210 THEN ACCEPTED IF TOTAL MOLECULAR REMARK 210 ENERGY AND EACH CONTRIBUTING REMARK 210 TERM WAS WITHIN TWO STANDARD REMARK 210 DEVIATIONS OF THE MEAN. THE 22 REMARK 210 STRUCTURES WITH LEAST RESTRAINT REMARK 210 VIOLATIONS (ENERGY PENALTY AND REMARK 210 MAGNITUDE OF LARGEST VIOLATION) REMARK 210 ALL MET THESE CRITERIA. REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: DIMER CONSTRAINTS WERE OBTAINED FROM REMARK 210 THE 3D_13C-FILTER,13C-EDITED EXPERIMENT REMARK 210 IN COMBINATION WITH 3D_13C-SEPARATED_NOESY 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: 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 HIS A 27 38.18 -90.76 REMARK 500 1 THR A 43 74.46 -64.49 REMARK 500 1 GLN A 49 4.15 -68.02 REMARK 500 1 LYS A 64 22.11 -148.44 REMARK 500 1 ASP A 65 -43.17 63.36 REMARK 500 1 TYR A 84 38.53 -70.82 REMARK 500 1 ALA B 2 31.12 -159.21 REMARK 500 1 LYS B 22 -39.54 -39.21 REMARK 500 1 GLU B 23 39.75 -141.31 REMARK 500 1 ASP B 25 47.57 -80.34 REMARK 500 1 LYS B 26 -107.98 39.35 REMARK 500 1 THR B 43 79.01 -64.58 REMARK 500 1 SER B 46 69.97 -69.93 REMARK 500 1 ASP B 65 -58.20 58.08 REMARK 500 2 ALA A 2 -61.95 67.63 REMARK 500 2 HIS A 27 37.08 -77.92 REMARK 500 2 LYS A 64 62.22 -161.41 REMARK 500 2 ASP A 65 -72.90 26.26 REMARK 500 2 ASN A 85 -54.58 68.94 REMARK 500 2 ALA B 2 6.22 59.78 REMARK 500 2 HIS B 27 34.14 -75.81 REMARK 500 2 THR B 43 179.51 68.56 REMARK 500 2 ILE B 44 -58.80 -141.98 REMARK 500 2 LYS B 64 -65.34 -105.11 REMARK 500 2 ASP B 65 -84.75 -178.05 REMARK 500 3 HIS A 27 48.91 -80.72 REMARK 500 3 SER A 46 72.37 -67.44 REMARK 500 3 LYS A 64 91.93 -165.43 REMARK 500 3 ALA B 2 -28.11 73.16 REMARK 500 3 THR B 43 74.60 -67.22 REMARK 500 3 SER B 46 70.35 -68.67 REMARK 500 3 ASN B 63 -67.92 -27.01 REMARK 500 3 LYS B 64 48.56 -155.20 REMARK 500 3 ASP B 65 -75.79 48.33 REMARK 500 4 ALA A 2 -56.29 70.30 REMARK 500 4 HIS A 27 33.29 -79.60 REMARK 500 4 LYS A 64 59.13 -147.16 REMARK 500 4 ASP A 65 82.93 13.61 REMARK 500 4 GLN A 66 -15.43 104.51 REMARK 500 4 ASP B 25 -113.80 -166.51 REMARK 500 4 LYS B 26 156.41 69.76 REMARK 500 4 HIS B 27 33.45 -96.40 REMARK 500 4 SER B 46 19.53 58.00 REMARK 500 4 ASP B 65 -65.27 56.48 REMARK 500 4 ASN B 85 -61.54 70.49 REMARK 500 5 ALA A 2 37.04 -78.23 REMARK 500 5 HIS A 27 48.78 -78.18 REMARK 500 5 SER A 46 62.71 -67.77 REMARK 500 5 ARG A 62 -39.48 -34.16 REMARK 500 5 LYS A 64 32.97 -152.71 REMARK 500 REMARK 500 THIS ENTRY HAS 280 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 1 TYR A 19 0.07 SIDE CHAIN REMARK 500 1 ARG A 62 0.08 SIDE CHAIN REMARK 500 1 TYR A 73 0.06 SIDE CHAIN REMARK 500 1 HIS B 17 0.08 SIDE CHAIN REMARK 500 1 TYR B 19 0.17 SIDE CHAIN REMARK 500 1 ARG B 62 0.10 SIDE CHAIN REMARK 500 1 TYR B 73 0.07 SIDE CHAIN REMARK 500 2 TYR A 73 0.09 SIDE CHAIN REMARK 500 2 TYR A 84 0.09 SIDE CHAIN REMARK 500 2 TYR B 19 0.13 SIDE CHAIN REMARK 500 2 PHE B 70 0.08 SIDE CHAIN REMARK 500 3 TYR A 19 0.11 SIDE CHAIN REMARK 500 3 TYR B 19 0.13 SIDE CHAIN REMARK 500 3 TYR B 73 0.08 SIDE CHAIN REMARK 500 4 TYR A 19 0.12 SIDE CHAIN REMARK 500 4 TYR A 73 0.08 SIDE CHAIN REMARK 500 5 TYR A 19 0.08 SIDE CHAIN REMARK 500 5 ARG A 62 0.13 SIDE CHAIN REMARK 500 5 PHE A 70 0.07 SIDE CHAIN REMARK 500 5 TYR A 73 0.07 SIDE CHAIN REMARK 500 5 TYR B 19 0.13 SIDE CHAIN REMARK 500 5 ARG B 62 0.12 SIDE CHAIN REMARK 500 6 TYR A 19 0.16 SIDE CHAIN REMARK 500 6 TYR A 73 0.09 SIDE CHAIN REMARK 500 6 TYR B 19 0.07 SIDE CHAIN REMARK 500 6 TYR B 73 0.07 SIDE CHAIN REMARK 500 6 TYR B 84 0.06 SIDE CHAIN REMARK 500 7 TYR A 19 0.07 SIDE CHAIN REMARK 500 7 TYR B 19 0.12 SIDE CHAIN REMARK 500 8 TYR A 19 0.09 SIDE CHAIN REMARK 500 8 TYR A 73 0.07 SIDE CHAIN REMARK 500 8 TYR B 19 0.14 SIDE CHAIN REMARK 500 8 TYR B 73 0.08 SIDE CHAIN REMARK 500 9 TYR A 19 0.10 SIDE CHAIN REMARK 500 9 TYR A 73 0.08 SIDE CHAIN REMARK 500 9 TYR B 19 0.10 SIDE CHAIN REMARK 500 9 ARG B 62 0.10 SIDE CHAIN REMARK 500 9 TYR B 73 0.07 SIDE CHAIN REMARK 500 10 TYR A 19 0.14 SIDE CHAIN REMARK 500 10 TYR A 73 0.09 SIDE CHAIN REMARK 500 10 TYR B 19 0.15 SIDE CHAIN REMARK 500 10 TYR B 73 0.07 SIDE CHAIN REMARK 500 11 TYR A 19 0.11 SIDE CHAIN REMARK 500 11 TYR A 73 0.07 SIDE CHAIN REMARK 500 11 TYR B 19 0.11 SIDE CHAIN REMARK 500 12 TYR A 19 0.16 SIDE CHAIN REMARK 500 13 TYR A 19 0.10 SIDE CHAIN REMARK 500 13 TYR A 73 0.07 SIDE CHAIN REMARK 500 13 TYR B 19 0.14 SIDE CHAIN REMARK 500 13 TYR B 73 0.08 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 78 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1A03 RELATED DB: PDB REMARK 900 LOW-RESOLUTION STRUCTURE OF CA2+-BOUND CALCYCLIN REMARK 900 RELATED ID: 2CNP RELATED DB: PDB REMARK 900 HIGH-RESOLUTION STRUCTURE OF APO CALCYCLIN REMARK 900 RELATED ID: 1CNP RELATED DB: PDB REMARK 900 LOW-RESOLUTION SOLUTION STRUCTURE OF APO CALCYCLIN DBREF 1JWD A 1 90 UNP P30801 S10A6_RABIT 1 90 DBREF 1JWD B 1 90 UNP P30801 S10A6_RABIT 1 90 SEQRES 1 A 90 MET ALA SER PRO LEU ASP GLN ALA ILE GLY LEU LEU ILE SEQRES 2 A 90 GLY ILE PHE HIS LYS TYR SER GLY LYS GLU GLY ASP LYS SEQRES 3 A 90 HIS THR LEU SER LYS LYS GLU LEU LYS GLU LEU ILE GLN SEQRES 4 A 90 LYS GLU LEU THR ILE GLY SER LYS LEU GLN ASP ALA GLU SEQRES 5 A 90 ILE VAL LYS LEU MET ASP ASP LEU ASP ARG ASN LYS ASP SEQRES 6 A 90 GLN GLU VAL ASN PHE GLN GLU TYR ILE THR PHE LEU GLY SEQRES 7 A 90 ALA LEU ALA MET ILE TYR ASN GLU ALA LEU LYS GLY SEQRES 1 B 90 MET ALA SER PRO LEU ASP GLN ALA ILE GLY LEU LEU ILE SEQRES 2 B 90 GLY ILE PHE HIS LYS TYR SER GLY LYS GLU GLY ASP LYS SEQRES 3 B 90 HIS THR LEU SER LYS LYS GLU LEU LYS GLU LEU ILE GLN SEQRES 4 B 90 LYS GLU LEU THR ILE GLY SER LYS LEU GLN ASP ALA GLU SEQRES 5 B 90 ILE VAL LYS LEU MET ASP ASP LEU ASP ARG ASN LYS ASP SEQRES 6 B 90 GLN GLU VAL ASN PHE GLN GLU TYR ILE THR PHE LEU GLY SEQRES 7 B 90 ALA LEU ALA MET ILE TYR ASN GLU ALA LEU LYS GLY HELIX 1 1 ALA A 2 GLY A 24 1 23 HELIX 2 2 LYS A 31 LEU A 42 1 12 HELIX 3 3 SER A 46 LEU A 48 5 3 HELIX 4 4 GLN A 49 ARG A 62 1 14 HELIX 5 5 PHE A 70 TYR A 84 1 15 HELIX 6 6 TYR A 84 GLY A 90 1 7 HELIX 7 7 ALA B 2 LYS B 22 1 21 HELIX 8 8 LYS B 31 LEU B 42 1 12 HELIX 9 9 SER B 46 LEU B 48 5 3 HELIX 10 10 GLN B 49 ASN B 63 1 15 HELIX 11 11 PHE B 70 TYR B 84 1 15 HELIX 12 12 TYR B 84 GLY B 90 1 7 SHEET 1 A 2 THR A 28 SER A 30 0 SHEET 2 A 2 GLU A 67 ASN A 69 -1 O VAL A 68 N LEU A 29 SHEET 1 B 2 THR B 28 SER B 30 0 SHEET 2 B 2 GLU B 67 ASN B 69 -1 O VAL B 68 N LEU B 29 CRYST1 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