PDB Short entry for 2LCP HEADER METAL BINDING PROTEIN 05-MAY-11 2LCP TITLE NMR STRUCTURE OF CALCIUM LOADED, UN-MYRISTOYLATED HUMAN NCS-1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEURONAL CALCIUM SENSOR 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: NCS-1, FREQUENIN HOMOLOG, FREQUENIN-LIKE PROTEIN, FREQUENIN- COMPND 5 LIKE UBIQUITOUS PROTEIN; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: NCS1, FLUP, FREQ; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET-16B KEYWDS NEURONAL CALCIUM SENSOR, EF-HAND, CALCIUM BINDING, METAL BINDING KEYWDS 2 PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR P.O.HEIDARSSON,I.J.BJERRUM-BOHR,L.BELLUCCI,J.GITTE,S.CORNI, AUTHOR 2 F.M.POULSEN,B.E.FINN,R.DI FELICE,B.KRAGELUND REVDAT 3 14-JUN-23 2LCP 1 REMARK LINK REVDAT 2 14-MAR-12 2LCP 1 JRNL REVDAT 1 01-FEB-12 2LCP 0 JRNL AUTH P.O.HEIDARSSON,I.J.BJERRUM-BOHR,G.A.JENSEN,O.PONGS,B.E.FINN, JRNL AUTH 2 F.M.POULSEN,B.B.KRAGELUND JRNL TITL THE C-TERMINAL TAIL OF HUMAN NEURONAL CALCIUM SENSOR 1 JRNL TITL 2 REGULATES THE CONFORMATIONAL STABILITY OF THE JRNL TITL 3 CA(2+)-ACTIVATED STATE. JRNL REF J.MOL.BIOL. V. 417 51 2012 JRNL REFN ISSN 0022-2836 JRNL PMID 22227393 JRNL DOI 10.1016/J.JMB.2011.12.049 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH, X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X-PLOR REMARK 3 NIH), SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X- REMARK 3 PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LCP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAY-11. REMARK 100 THE DEPOSITION ID IS D_1000102235. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310 REMARK 210 PH : 7.2 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.4 MM [U-99% 13C; U-99% 15N] REMARK 210 HNCS-1, 8 MM CALCIUM ION, 14 MM REMARK 210 DTT, 8 MM CALCIUM ION, 90% H2O/ REMARK 210 10% D2O; 1.4 MM [U-99% 13C; U-99% REMARK 210 15N] HNCS-1, 8 MM CALCIUM ION, REMARK 210 14 MM DTT, 100% D2O; 0.8 MM [U- REMARK 210 99% 13C; U-99% 15N] HNCS-1, 10 REMARK 210 MM CALCIUM ION, 2 MM TCEP, 10 MM REMARK 210 TRIS, 100% D2O; 0.6 MM [U-99% REMARK 210 15N] HNCS-1, 10 MM CALCIUM ION, REMARK 210 6 MM DTT, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D C(CO)NH; 3D HNCO; 3D HNCA; 3D REMARK 210 HNCACB; 3D HCCH-TOCSY; 3D HN(CO) REMARK 210 CA; 3D 1H-15N NOESY; 3D 1H-15N REMARK 210 TOCSY; 3D 1H-13C NOESY ALIPHATIC; REMARK 210 3D 1H-13C NOESY AROMATIC; 3D REMARK 210 HCACO; 3D-13C-HCCH-TOCSY REMARK 210 ALIPHATIC; 3D-13C-HCCH-TOCSY REMARK 210 AROMATIC; 3D 13C-HSQC-NOESY REMARK 210 ALIPHATIC; 3D 13C-HSQC-NOESY REMARK 210 AROMATIC REGIONS REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : UNITYPLUS REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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: 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: 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 1 LYS A 7 156.13 56.26 REMARK 500 1 THR A 20 -27.90 -168.20 REMARK 500 1 TYR A 21 -9.33 65.15 REMARK 500 1 ASP A 60 -64.46 -155.49 REMARK 500 1 THR A 62 -3.32 57.34 REMARK 500 1 ARG A 94 71.02 172.21 REMARK 500 1 ASN A 112 57.96 11.73 REMARK 500 1 ASN A 134 -124.12 43.06 REMARK 500 1 THR A 135 25.92 -147.19 REMARK 500 1 GLU A 137 48.55 164.83 REMARK 500 1 GLU A 140 -155.65 35.56 REMARK 500 1 GLU A 142 65.13 -175.51 REMARK 500 1 GLU A 146 -75.31 -92.46 REMARK 500 1 ASN A 159 -23.04 -39.14 REMARK 500 1 ALA A 160 16.67 90.79 REMARK 500 1 PRO A 177 -179.75 -45.19 REMARK 500 1 SER A 178 -30.88 82.33 REMARK 500 1 GLN A 181 99.99 -46.64 REMARK 500 2 LEU A 8 158.82 -37.28 REMARK 500 2 THR A 20 -20.71 160.48 REMARK 500 2 TYR A 21 -6.71 72.73 REMARK 500 2 PRO A 39 154.62 -46.57 REMARK 500 2 SER A 40 -28.78 78.22 REMARK 500 2 PRO A 61 81.68 -45.52 REMARK 500 2 THR A 62 -86.23 -167.95 REMARK 500 2 ARG A 94 -69.09 -154.61 REMARK 500 2 ASN A 112 86.56 -34.99 REMARK 500 2 ASN A 134 -116.81 -76.16 REMARK 500 2 THR A 135 25.39 -147.73 REMARK 500 2 GLU A 137 71.96 165.37 REMARK 500 2 GLU A 140 -152.56 32.08 REMARK 500 2 THR A 144 70.51 50.68 REMARK 500 2 ASN A 159 -23.61 -39.26 REMARK 500 2 ALA A 160 -1.90 80.41 REMARK 500 2 ALA A 175 -84.81 -121.45 REMARK 500 2 SER A 178 -40.02 81.59 REMARK 500 2 LEU A 183 -72.35 -88.26 REMARK 500 2 LEU A 185 106.11 50.56 REMARK 500 2 LEU A 189 75.16 -173.90 REMARK 500 3 SER A 6 84.07 37.16 REMARK 500 3 THR A 20 -24.92 -171.07 REMARK 500 3 PRO A 61 -5.88 -59.20 REMARK 500 3 THR A 62 -82.10 -101.20 REMARK 500 3 ASP A 73 92.18 -67.92 REMARK 500 3 LYS A 76 21.45 40.39 REMARK 500 3 ARG A 94 32.51 -152.84 REMARK 500 3 ASN A 112 86.20 -29.13 REMARK 500 3 PRO A 139 104.25 -58.24 REMARK 500 3 GLU A 142 64.71 -161.79 REMARK 500 3 ASN A 143 -8.08 -46.81 REMARK 500 REMARK 500 THIS ENTRY HAS 407 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 600 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 73 OD1 REMARK 620 2 ASN A 75 OD1 117.5 REMARK 620 3 ASP A 77 OD2 113.2 101.2 REMARK 620 4 ASP A 77 OD1 76.2 117.3 37.2 REMARK 620 5 ARG A 79 O 76.6 163.5 63.8 55.3 REMARK 620 6 GLU A 84 OE1 74.3 93.4 157.0 144.7 98.9 REMARK 620 7 GLU A 84 OE2 90.8 47.6 148.2 152.1 145.8 46.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 601 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 109 OD2 REMARK 620 2 ASP A 109 OD1 46.8 REMARK 620 3 ASP A 111 OD2 138.8 104.6 REMARK 620 4 ASP A 111 OD1 99.4 56.8 48.3 REMARK 620 5 ASP A 113 OD2 123.9 153.2 65.7 111.7 REMARK 620 6 ASP A 113 OD1 97.5 133.3 83.7 120.2 26.5 REMARK 620 7 TYR A 115 O 62.7 105.9 147.3 162.0 81.7 66.8 REMARK 620 8 GLU A 120 OE1 71.9 49.7 115.3 78.5 156.9 160.4 93.6 REMARK 620 9 GLU A 120 OE2 115.5 76.6 73.3 59.0 120.4 146.9 125.5 45.8 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 602 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 157 OD1 REMARK 620 2 ASN A 159 OD1 80.2 REMARK 620 3 ASP A 161 OD1 96.1 41.7 REMARK 620 4 ASP A 161 OD2 114.5 48.4 18.7 REMARK 620 5 LYS A 163 O 72.4 131.2 101.8 109.7 REMARK 620 6 GLU A 168 OE2 128.5 57.3 72.0 58.4 158.0 REMARK 620 7 GLU A 168 OE1 124.7 97.6 118.6 102.7 131.1 47.0 REMARK 620 N 1 2 3 4 5 6 REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 602 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4378 RELATED DB: BMRB REMARK 900 BACKBONE ASSIGNMENTS REMARK 900 RELATED ID: 1FPW RELATED DB: PDB REMARK 900 RECOVERIN REMARK 900 RELATED ID: 1G8I RELATED DB: PDB REMARK 900 FRQ1 COMPLEX WITH PIK1 REMARK 900 RELATED ID: 2JU0 RELATED DB: PDB REMARK 900 X-RAY STRUCTURE DBREF 2LCP A 1 190 UNP P62166 NCS1_HUMAN 1 190 SEQRES 1 A 190 MET GLY LYS SER ASN SER LYS LEU LYS PRO GLU VAL VAL SEQRES 2 A 190 GLU GLU LEU THR ARG LYS THR TYR PHE THR GLU LYS GLU SEQRES 3 A 190 VAL GLN GLN TRP TYR LYS GLY PHE ILE LYS ASP CYS PRO SEQRES 4 A 190 SER GLY GLN LEU ASP ALA ALA GLY PHE GLN LYS ILE TYR SEQRES 5 A 190 LYS GLN PHE PHE PRO PHE GLY ASP PRO THR LYS PHE ALA SEQRES 6 A 190 THR PHE VAL PHE ASN VAL PHE ASP GLU ASN LYS ASP GLY SEQRES 7 A 190 ARG ILE GLU PHE SER GLU PHE ILE GLN ALA LEU SER VAL SEQRES 8 A 190 THR SER ARG GLY THR LEU ASP GLU LYS LEU ARG TRP ALA SEQRES 9 A 190 PHE LYS LEU TYR ASP LEU ASP ASN ASP GLY TYR ILE THR SEQRES 10 A 190 ARG ASN GLU MET LEU ASP ILE VAL ASP ALA ILE TYR GLN SEQRES 11 A 190 MET VAL GLY ASN THR VAL GLU LEU PRO GLU GLU GLU ASN SEQRES 12 A 190 THR PRO GLU LYS ARG VAL ASP ARG ILE PHE ALA MET MET SEQRES 13 A 190 ASP LYS ASN ALA ASP GLY LYS LEU THR LEU GLN GLU PHE SEQRES 14 A 190 GLN GLU GLY SER LYS ALA ASP PRO SER ILE VAL GLN ALA SEQRES 15 A 190 LEU SER LEU TYR ASP GLY LEU VAL HET CA A 600 1 HET CA A 601 1 HET CA A 602 1 HETNAM CA CALCIUM ION FORMUL 2 CA 3(CA 2+) HELIX 1 1 LYS A 9 LYS A 19 1 11 HELIX 2 2 THR A 23 CYS A 38 1 16 HELIX 3 3 ALA A 45 PHE A 56 1 12 HELIX 4 4 THR A 62 ASP A 73 1 12 HELIX 5 5 PHE A 82 GLY A 95 1 14 HELIX 6 6 THR A 96 ASP A 109 1 14 HELIX 7 7 THR A 117 GLY A 133 1 17 HELIX 8 8 GLU A 146 ASP A 157 1 12 HELIX 9 9 LEU A 166 ASP A 176 1 11 SHEET 1 A 2 GLN A 42 ASP A 44 0 SHEET 2 A 2 ARG A 79 GLU A 81 -1 O ILE A 80 N LEU A 43 SHEET 1 B 2 TYR A 115 ILE A 116 0 SHEET 2 B 2 LEU A 164 THR A 165 -1 O LEU A 164 N ILE A 116 LINK OD1 ASP A 73 CA CA A 600 1555 1555 2.57 LINK OD1 ASN A 75 CA CA A 600 1555 1555 2.85 LINK OD2 ASP A 77 CA CA A 600 1555 1555 3.57 LINK OD1 ASP A 77 CA CA A 600 1555 1555 2.84 LINK O ARG A 79 CA CA A 600 1555 1555 2.84 LINK OE1 GLU A 84 CA CA A 600 1555 1555 2.51 LINK OE2 GLU A 84 CA CA A 600 1555 1555 2.84 LINK OD2 ASP A 109 CA CA A 601 1555 1555 2.51 LINK OD1 ASP A 109 CA CA A 601 1555 1555 2.86 LINK OD2 ASP A 111 CA CA A 601 1555 1555 2.74 LINK OD1 ASP A 111 CA CA A 601 1555 1555 2.50 LINK OD2 ASP A 113 CA CA A 601 1555 1555 4.28 LINK OD1 ASP A 113 CA CA A 601 1555 1555 2.83 LINK O TYR A 115 CA CA A 601 1555 1555 2.50 LINK OE1 GLU A 120 CA CA A 601 1555 1555 2.71 LINK OE2 GLU A 120 CA CA A 601 1555 1555 2.81 LINK OD1 ASP A 157 CA CA A 602 1555 1555 2.57 LINK OD1 ASN A 159 CA CA A 602 1555 1555 2.84 LINK OD1 ASP A 161 CA CA A 602 1555 1555 4.61 LINK OD2 ASP A 161 CA CA A 602 1555 1555 2.81 LINK O LYS A 163 CA CA A 602 1555 1555 2.86 LINK OE2 GLU A 168 CA CA A 602 1555 1555 2.81 LINK OE1 GLU A 168 CA CA A 602 1555 1555 2.56 SITE 1 AC1 6 ASP A 73 ASN A 75 ASP A 77 ARG A 79 SITE 2 AC1 6 GLU A 81 GLU A 84 SITE 1 AC2 5 ASP A 109 ASP A 111 ASP A 113 TYR A 115 SITE 2 AC2 5 GLU A 120 SITE 1 AC3 5 ASP A 157 ASN A 159 ASP A 161 LYS A 163 SITE 2 AC3 5 GLU A 168 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