PDB Short entry for 1V89 HEADER SIGNALING PROTEIN 29-DEC-03 1V89 TITLE SOLUTION STRUCTURE OF THE PLECKSTRIN HOMOLOGY DOMAIN OF HUMAN KIAA0053 TITLE 2 PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL PROTEIN KIAA0053; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PLECKSTRIN HOMOLOGY (PH) DOMAIN; COMPND 5 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: KAZUSA CDNA HA01417; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P030512-36; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS PLECKSTRIN HOMOLOGY DOMAIN, PHOSPHATIDYLINOSITOL BINDING, STRUCTURAL KEYWDS 2 GENOMICS, RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, KEYWDS 3 SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.LI,N.TOCHIO,S.KOSHIBA,M.INOUE,H.HIROTA,T.KIGAWA,S.YOKOYAMA,RIKEN AUTHOR 2 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 02-MAR-22 1V89 1 REMARK SEQADV REVDAT 2 24-FEB-09 1V89 1 VERSN REVDAT 1 29-JUN-04 1V89 0 JRNL AUTH H.LI,N.TOCHIO,S.KOSHIBA,M.INOUE,H.HIROTA,T.KIGAWA,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE PLECKSTRIN HOMOLOGY DOMAIN OF JRNL TITL 2 HUMAN KIAA0053 PROTEIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DELTA 4.2, CYANA 1.0.7 REMARK 3 AUTHORS : JEOL (DELTA), GUENTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1V89 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-DEC-03. REMARK 100 THE DEPOSITION ID IS D_1000006330. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.30MM PLECKSTRIN HOMOLOGY REMARK 210 DOMAIN U-13C, 15N; 20MM REMARK 210 PHOSPHATE BUFFER NA(6.0); 100MM REMARK 210 NACL; 1MM D-DTT; 0.02% NAN3; 90% REMARK 210 H2O, 10% D2O; 1.30MM PLECKSTRIN REMARK 210 HOMOLOGY DOMAIN U-13C, 15N; 20MM REMARK 210 PHOSPHATE BUFFER NA(6.0); 100MM REMARK 210 NACL; 1MM D-DTT; 0.02% NAN3; 100% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 920 MHZ REMARK 210 SPECTROMETER MODEL : ECA REMARK 210 SPECTROMETER MANUFACTURER : JEOL REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 20020425, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.854, CYANA 1.0.7 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS, TARGET REMARK 210 FUNCTION 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 O VAL A 104 H ARG A 108 1.53 REMARK 500 O ILE A 75 H TYR A 90 1.55 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 SER A 6 -55.29 172.67 REMARK 500 1 ARG A 18 -173.81 -56.26 REMARK 500 1 LYS A 22 38.86 -98.78 REMARK 500 1 ALA A 33 -142.91 50.60 REMARK 500 1 GLN A 34 56.28 -94.50 REMARK 500 1 GLU A 42 40.69 -98.59 REMARK 500 1 GLU A 43 -54.57 -125.54 REMARK 500 1 GLN A 48 -70.59 -79.85 REMARK 500 1 THR A 63 -127.33 -66.29 REMARK 500 1 PHE A 71 77.29 -110.80 REMARK 500 1 SER A 79 101.26 53.40 REMARK 500 1 TRP A 80 92.58 -161.13 REMARK 500 1 ASP A 81 -47.54 -171.56 REMARK 500 1 GLN A 82 41.82 -100.14 REMARK 500 1 ARG A 84 43.63 -94.98 REMARK 500 1 MET A 85 -74.50 -128.14 REMARK 500 1 GLN A 87 79.49 -166.26 REMARK 500 1 SER A 89 176.58 -57.64 REMARK 500 1 ARG A 109 -71.06 -50.24 REMARK 500 1 SER A 116 110.69 -162.21 REMARK 500 2 SER A 6 109.84 -42.54 REMARK 500 2 PRO A 8 -163.09 -74.95 REMARK 500 2 ILE A 9 -57.80 -129.13 REMARK 500 2 ARG A 18 179.15 -58.42 REMARK 500 2 SER A 19 -90.10 -48.81 REMARK 500 2 GLN A 26 99.13 -67.38 REMARK 500 2 ALA A 33 -144.31 47.13 REMARK 500 2 GLU A 43 -89.84 -77.29 REMARK 500 2 ASP A 44 85.97 39.67 REMARK 500 2 ASN A 64 167.82 62.47 REMARK 500 2 GLU A 66 -77.23 -113.95 REMARK 500 2 GLU A 67 -156.85 59.82 REMARK 500 2 PHE A 71 65.97 -110.14 REMARK 500 2 TRP A 80 48.48 -168.24 REMARK 500 2 ASP A 81 -56.47 -156.96 REMARK 500 2 ASN A 83 -177.96 63.98 REMARK 500 2 ARG A 84 30.90 -95.14 REMARK 500 2 GLN A 87 62.44 39.74 REMARK 500 2 SER A 117 88.52 -165.39 REMARK 500 3 SER A 3 144.51 -178.65 REMARK 500 3 SER A 5 99.40 51.19 REMARK 500 3 SER A 19 -88.02 -39.71 REMARK 500 3 ALA A 33 -143.87 57.64 REMARK 500 3 GLN A 34 49.32 -91.74 REMARK 500 3 GLU A 42 46.37 -101.74 REMARK 500 3 ASN A 64 159.26 -40.42 REMARK 500 3 GLU A 66 31.15 -98.12 REMARK 500 3 ALA A 78 58.50 38.90 REMARK 500 3 SER A 79 88.98 37.80 REMARK 500 3 ASP A 81 99.98 -40.00 REMARK 500 REMARK 500 THIS ENTRY HAS 382 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSK002000050.1 RELATED DB: TARGETDB DBREF 1V89 A 8 112 UNP P42331 RHG25_HUMAN 40 144 SEQADV 1V89 GLY A 1 UNP P42331 CLONING ARTIFACT SEQADV 1V89 SER A 2 UNP P42331 CLONING ARTIFACT SEQADV 1V89 SER A 3 UNP P42331 CLONING ARTIFACT SEQADV 1V89 GLY A 4 UNP P42331 CLONING ARTIFACT SEQADV 1V89 SER A 5 UNP P42331 CLONING ARTIFACT SEQADV 1V89 SER A 6 UNP P42331 CLONING ARTIFACT SEQADV 1V89 GLY A 7 UNP P42331 CLONING ARTIFACT SEQADV 1V89 SER A 113 UNP P42331 CLONING ARTIFACT SEQADV 1V89 GLY A 114 UNP P42331 CLONING ARTIFACT SEQADV 1V89 PRO A 115 UNP P42331 CLONING ARTIFACT SEQADV 1V89 SER A 116 UNP P42331 CLONING ARTIFACT SEQADV 1V89 SER A 117 UNP P42331 CLONING ARTIFACT SEQADV 1V89 GLY A 118 UNP P42331 CLONING ARTIFACT SEQRES 1 A 118 GLY SER SER GLY SER SER GLY PRO ILE LYS MET GLY TRP SEQRES 2 A 118 LEU LYS LYS GLN ARG SER ILE VAL LYS ASN TRP GLN GLN SEQRES 3 A 118 ARG TYR PHE VAL LEU ARG ALA GLN GLN LEU TYR TYR TYR SEQRES 4 A 118 LYS ASP GLU GLU ASP THR LYS PRO GLN GLY CYS MET TYR SEQRES 5 A 118 LEU PRO GLY CYS THR ILE LYS GLU ILE ALA THR ASN PRO SEQRES 6 A 118 GLU GLU ALA GLY LYS PHE VAL PHE GLU ILE ILE PRO ALA SEQRES 7 A 118 SER TRP ASP GLN ASN ARG MET GLY GLN ASP SER TYR VAL SEQRES 8 A 118 LEU MET ALA SER SER GLN ALA GLU MET GLU GLU TRP VAL SEQRES 9 A 118 LYS PHE LEU ARG ARG VAL ALA GLY SER GLY PRO SER SER SEQRES 10 A 118 GLY HELIX 1 1 GLN A 97 ALA A 111 1 15 SHEET 1 A 7 GLY A 49 MET A 51 0 SHEET 2 A 7 GLN A 35 TYR A 39 -1 N LEU A 36 O MET A 51 SHEET 3 A 7 TRP A 24 ARG A 32 -1 N TYR A 28 O TYR A 39 SHEET 4 A 7 LYS A 10 GLN A 17 -1 N LEU A 14 O ARG A 27 SHEET 5 A 7 TYR A 90 MET A 93 -1 O MET A 93 N LYS A 15 SHEET 6 A 7 VAL A 72 PRO A 77 -1 N ILE A 75 O TYR A 90 SHEET 7 A 7 CYS A 56 ILE A 61 -1 N LYS A 59 O GLU A 74 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