PDB Short entry for 2KQ6 HEADER TRANSPORT PROTEIN 28-OCT-09 2KQ6 TITLE THE STRUCTURE OF THE EF-HAND DOMAIN OF POLYCYSTIN-2 SUGGESTS A TITLE 2 MECHANISM FOR CA2+-DEPENDENT REGULATION OF POLYCYSTIN-2 CHANNEL TITLE 3 ACTIVITY COMPND MOL_ID: 1; COMPND 2 MOLECULE: POLYCYSTIN-2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 720-797; COMPND 5 SYNONYM: POLYCYSTIC KIDNEY DISEASE 2 PROTEIN, AUTOSOMAL DOMINANT COMPND 6 POLYCYSTIC KIDNEY DISEASE TYPE II PROTEIN, POLYCYSTWIN, R48321; COMPND 7 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: PKD2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET-28A+ KEYWDS PROTEIN X, CALCIUM, COILED COIL, DISEASE MUTATION, GLYCOPROTEIN, ION KEYWDS 2 TRANSPORT, IONIC CHANNEL, MEMBRANE, PHOSPHOPROTEIN, POLYMORPHISM, KEYWDS 3 TRANSMEMBRANE, TRANSPORT, TRANSPORT PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR E.T.PETRI,A.CELIC,S.D.KENNEDY,B.E.EHRLICH,T.J.BOGGON,M.E.HODSDON REVDAT 4 14-JUN-23 2KQ6 1 REMARK REVDAT 3 26-FEB-20 2KQ6 1 REMARK REVDAT 2 09-JUN-10 2KQ6 1 JRNL REVDAT 1 12-MAY-10 2KQ6 0 JRNL AUTH E.T.PETRI,A.CELIC,S.D.KENNEDY,B.E.EHRLICH,T.J.BOGGON, JRNL AUTH 2 M.E.HODSDON JRNL TITL STRUCTURE OF THE EF-HAND DOMAIN OF POLYCYSTIN-2 SUGGESTS A JRNL TITL 2 MECHANISM FOR CA2+-DEPENDENT REGULATION OF POLYCYSTIN-2 JRNL TITL 3 CHANNEL ACTIVITY. JRNL REF PROC.NATL.ACAD.SCI.USA V. 107 9176 2010 JRNL REFN ISSN 0027-8424 JRNL PMID 20439752 JRNL DOI 10.1073/PNAS.0912295107 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KQ6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000101435. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : 0.150 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-13C; U-15N] PROTEIN, 5 % REMARK 210 D2O, 0.05 % SODIUM AZIDE, 10 UM REMARK 210 PMSF, 2 MM TRIS PH7.4, 150 MM REMARK 210 SODIUM CHLORIDE, 20 MM CA2+, 95% REMARK 210 H2O/5% D2O; 1 MM [U-15N] PROTEIN, REMARK 210 2 MM TRIS PH7.4, 20 MM CA2+, REMARK 210 150 MM SODIUM CHLORIDE, 5% D2O, REMARK 210 10 UM PMSF, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-1H NOESY; 3D CBCA(CO)NH; REMARK 210 3D C(CO)NH; 3D HNCO; 3D HNCA; 3D REMARK 210 HNCACB; 3D HN(CO)CA; 3D H(CCO)NH; REMARK 210 3D HCCH-TOCSY; 3D 1H-15N NOESY; REMARK 210 3D 1H-15N TOCSY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, NMRDRAW, NMRPIPE, X-PLOR REMARK 210 NIH, PSVS, MOLMOL REMARK 210 METHOD USED : XPLOR-NIH REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 80 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY AND LEAST RESTRAINT REMARK 210 VIOLATIONS 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 ASP A 4 90.83 55.12 REMARK 500 1 ASP A 5 89.63 -68.57 REMARK 500 1 PHE A 19 -36.20 -31.27 REMARK 500 1 LEU A 72 92.33 -60.55 REMARK 500 2 PHE A 19 -34.24 -31.37 REMARK 500 2 SER A 75 -170.24 51.33 REMARK 500 2 SER A 76 -10.70 -162.41 REMARK 500 3 VAL A 3 84.20 -69.06 REMARK 500 3 ASP A 4 81.45 -165.49 REMARK 500 3 ILE A 6 -37.09 -140.37 REMARK 500 3 GLN A 12 -78.25 53.92 REMARK 500 4 GLN A 12 -75.95 -46.00 REMARK 500 4 ASP A 73 6.86 -68.65 REMARK 500 4 SER A 75 92.25 -168.02 REMARK 500 5 GLN A 12 -82.93 -43.77 REMARK 500 5 PHE A 19 -32.29 -31.83 REMARK 500 6 ASP A 4 96.08 52.26 REMARK 500 6 ASP A 5 32.29 -152.14 REMARK 500 6 GLN A 12 -93.86 -53.66 REMARK 500 6 PHE A 19 -30.10 -33.44 REMARK 500 7 SER A 7 -9.41 -58.24 REMARK 500 7 GLN A 12 -79.16 -50.20 REMARK 500 7 PHE A 19 -35.11 -31.22 REMARK 500 7 LEU A 72 93.68 -69.79 REMARK 500 8 VAL A 3 23.24 -79.62 REMARK 500 8 ASP A 4 44.56 -72.24 REMARK 500 8 SER A 7 11.09 -68.15 REMARK 500 8 GLN A 12 -124.32 53.14 REMARK 500 8 PHE A 19 -32.29 -32.60 REMARK 500 8 ASP A 73 87.33 -64.05 REMARK 500 8 SER A 75 84.68 52.48 REMARK 500 9 GLN A 12 -81.60 54.51 REMARK 500 10 GLN A 12 -74.56 56.79 REMARK 500 10 PHE A 19 -33.88 -31.17 REMARK 500 10 ASP A 73 90.56 -68.68 REMARK 500 11 GLN A 12 -76.95 54.59 REMARK 500 11 PHE A 19 -35.18 -31.09 REMARK 500 12 ASP A 5 33.17 -164.74 REMARK 500 12 GLN A 12 -71.73 58.42 REMARK 500 12 PHE A 19 -37.82 -31.01 REMARK 500 12 SER A 76 12.02 -162.02 REMARK 500 13 VAL A 3 84.76 -66.48 REMARK 500 13 GLN A 12 -70.76 61.89 REMARK 500 13 PHE A 19 -33.23 -31.28 REMARK 500 13 ASP A 73 41.08 -77.77 REMARK 500 13 HIS A 74 -65.73 -156.23 REMARK 500 13 SER A 75 -83.04 55.78 REMARK 500 13 SER A 76 -2.59 -162.28 REMARK 500 14 PHE A 19 -35.64 -30.66 REMARK 500 15 ASP A 4 131.39 -171.48 REMARK 500 REMARK 500 THIS ENTRY HAS 70 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16590 RELATED DB: BMRB DBREF 2KQ6 A 1 78 UNP Q13563 PKD2_HUMAN 720 797 SEQRES 1 A 78 ASN THR VAL ASP ASP ILE SER GLU SER LEU ARG GLN GLY SEQRES 2 A 78 GLY GLY LYS LEU ASN PHE ASP GLU LEU ARG GLN ASP LEU SEQRES 3 A 78 LYS GLY LYS GLY HIS THR ASP ALA GLU ILE GLU ALA ILE SEQRES 4 A 78 PHE THR LYS TYR ASP GLN ASP GLY ASP GLN GLU LEU THR SEQRES 5 A 78 GLU HIS GLU HIS GLN GLN MET ARG ASP ASP LEU GLU LYS SEQRES 6 A 78 GLU ARG GLU ASP LEU ASP LEU ASP HIS SER SER LEU PRO HELIX 1 1 ILE A 6 GLN A 12 1 7 HELIX 2 2 ASN A 18 LYS A 29 1 12 HELIX 3 3 THR A 32 ASP A 44 1 13 HELIX 4 4 THR A 52 LEU A 72 1 21 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