PDB Short entry for 1V88 HEADER LIPID TRANSPORT 29-DEC-03 1V88 TITLE SOLUTION STRUCTURE OF THE PLECKSTRIN HOMOLOGY DOMAIN OF OXYSTEROL- TITLE 2 BINDING PROTEIN-RELATED PROTEIN 8 (KIAA1451 PROTEIN) COMPND MOL_ID: 1; COMPND 2 MOLECULE: OXYSTEROL BINDING PROTEIN-RELATED PROTEIN 8; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PLECKSTRIN HOMOLOGY (PH) DOMAIN; COMPND 5 SYNONYM: KIAA1451 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: KAZUSA CDNA BG00289; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P030428-85; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS VESICLE TRANSPORT, OXYSTEROL-BINDING PROTEIN-RELATED PROTEIN 8, KEYWDS 2 PLECKSTRIN HOMOLOGY DOMAIN, PHOSPHATIDYLINOSITOL BINDING, STRUCTURAL KEYWDS 3 GENOMICS, RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, KEYWDS 4 LIPID TRANSPORT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.LI,T.TOMIZAWA,S.KOSHIBA,M.INOUE,T.KIGAWA,S.YOKOYAMA,RIKEN AUTHOR 2 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 4 27-DEC-23 1V88 1 REMARK REVDAT 3 02-MAR-22 1V88 1 REMARK SEQADV REVDAT 2 24-FEB-09 1V88 1 VERSN REVDAT 1 29-JUN-04 1V88 0 JRNL AUTH H.LI,T.TOMIZAWA,S.KOSHIBA,M.INOUE,T.KIGAWA,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE PLECKSTRIN HOMOLOGY DOMAIN OF JRNL TITL 2 OXYSTEROL-BINDING PROTEIN-RELATED PROTEIN 8 (KIAA1451 JRNL TITL 3 PROTEIN) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6, CYANA 1.0.7 REMARK 3 AUTHORS : BRUKER (XWINNMR), GUENTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1V88 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-JAN-04. REMARK 100 THE DEPOSITION ID IS D_1000006329. 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 : 1.21MM PLECKSTRIN HOMOLOGY REMARK 210 DOMAIN U-13C, 15N; 20MM REMARK 210 PHOSPHATE BUFFER NA; 100MM NACL; REMARK 210 1MM D-DTT; 0.02% NAN3; 90% H2O, REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER 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 H VAL A 29 O LEU A 36 1.51 REMARK 500 O LEU A 35 H VAL A 50 1.51 REMARK 500 O ALA A 118 H ALA A 122 1.52 REMARK 500 H TRP A 27 O TYR A 38 1.53 REMARK 500 O MET A 10 H LEU A 30 1.53 REMARK 500 H ARG A 60 O CYS A 68 1.53 REMARK 500 H VAL A 9 O LEU A 30 1.55 REMARK 500 O CYS A 114 H ALA A 118 1.59 REMARK 500 O ALA A 122 H SER A 125 1.60 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 5 -57.32 -179.05 REMARK 500 1 ARG A 17 124.05 -37.39 REMARK 500 1 LYS A 21 -36.72 178.72 REMARK 500 1 LYS A 42 -87.81 -58.36 REMARK 500 1 TRP A 46 145.53 67.16 REMARK 500 1 ALA A 54 58.19 -176.04 REMARK 500 1 GLU A 59 155.32 84.11 REMARK 500 1 ARG A 60 67.21 -164.16 REMARK 500 1 SER A 62 174.27 53.36 REMARK 500 1 LYS A 63 -77.40 -44.71 REMARK 500 1 ASP A 65 72.38 -171.04 REMARK 500 1 GLU A 76 90.26 36.49 REMARK 500 1 ILE A 79 49.59 -84.27 REMARK 500 1 LYS A 83 -134.40 -127.19 REMARK 500 1 LYS A 86 40.48 -97.08 REMARK 500 1 THR A 94 -161.03 -116.35 REMARK 500 1 GLN A 95 159.99 -42.39 REMARK 500 1 PRO A 98 -162.68 -74.99 REMARK 500 1 SER A 99 -44.83 -141.47 REMARK 500 1 LEU A 102 110.11 -163.04 REMARK 500 1 SER A 128 77.28 46.08 REMARK 500 2 SER A 5 -63.84 -99.04 REMARK 500 2 SER A 6 -66.71 -129.10 REMARK 500 2 ARG A 17 135.31 -38.92 REMARK 500 2 LYS A 21 -54.65 -147.29 REMARK 500 2 LYS A 42 -94.93 -68.05 REMARK 500 2 TRP A 46 152.05 67.90 REMARK 500 2 VAL A 47 -56.35 -125.43 REMARK 500 2 ALA A 54 62.92 -178.53 REMARK 500 2 GLU A 59 153.86 91.82 REMARK 500 2 ARG A 60 74.16 -166.54 REMARK 500 2 SER A 62 -179.82 52.82 REMARK 500 2 LYS A 64 114.81 60.39 REMARK 500 2 ASP A 65 71.02 168.68 REMARK 500 2 PHE A 67 126.04 -177.69 REMARK 500 2 GLU A 76 60.38 65.21 REMARK 500 2 GLN A 77 -82.34 -117.20 REMARK 500 2 SER A 78 141.25 -170.15 REMARK 500 2 LYS A 83 -133.54 -126.59 REMARK 500 2 LYS A 86 35.94 -93.09 REMARK 500 2 GLN A 95 159.19 -40.77 REMARK 500 2 LEU A 97 178.14 52.27 REMARK 500 2 PRO A 98 -162.04 -74.96 REMARK 500 2 SER A 99 -46.78 -139.75 REMARK 500 2 GLU A 120 -37.52 -38.65 REMARK 500 3 SER A 2 81.54 66.00 REMARK 500 3 SER A 3 133.08 -172.03 REMARK 500 3 SER A 5 85.88 55.50 REMARK 500 3 SER A 6 -64.47 -128.94 REMARK 500 3 VAL A 9 -62.65 -91.42 REMARK 500 REMARK 500 THIS ENTRY HAS 476 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR DETERMINED REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSK002101423.1 RELATED DB: TARGETDB DBREF 1V88 A 8 124 UNP Q9BZF1 OSBL8_HUMAN 214 330 SEQADV 1V88 GLY A 1 UNP Q9BZF1 CLONING ARTIFACT SEQADV 1V88 SER A 2 UNP Q9BZF1 CLONING ARTIFACT SEQADV 1V88 SER A 3 UNP Q9BZF1 CLONING ARTIFACT SEQADV 1V88 GLY A 4 UNP Q9BZF1 CLONING ARTIFACT SEQADV 1V88 SER A 5 UNP Q9BZF1 CLONING ARTIFACT SEQADV 1V88 SER A 6 UNP Q9BZF1 CLONING ARTIFACT SEQADV 1V88 GLY A 7 UNP Q9BZF1 CLONING ARTIFACT SEQADV 1V88 SER A 125 UNP Q9BZF1 CLONING ARTIFACT SEQADV 1V88 GLY A 126 UNP Q9BZF1 CLONING ARTIFACT SEQADV 1V88 PRO A 127 UNP Q9BZF1 CLONING ARTIFACT SEQADV 1V88 SER A 128 UNP Q9BZF1 CLONING ARTIFACT SEQADV 1V88 SER A 129 UNP Q9BZF1 CLONING ARTIFACT SEQADV 1V88 GLY A 130 UNP Q9BZF1 CLONING ARTIFACT SEQRES 1 A 130 GLY SER SER GLY SER SER GLY ILE VAL MET ALA ASP TRP SEQRES 2 A 130 LEU LYS ILE ARG GLY THR LEU LYS SER TRP THR LYS LEU SEQRES 3 A 130 TRP CYS VAL LEU LYS PRO GLY VAL LEU LEU ILE TYR LYS SEQRES 4 A 130 THR GLN LYS ASN GLY GLN TRP VAL GLY THR VAL LEU LEU SEQRES 5 A 130 ASN ALA CYS GLU ILE ILE GLU ARG PRO SER LYS LYS ASP SEQRES 6 A 130 GLY PHE CYS PHE LYS LEU PHE HIS PRO LEU GLU GLN SER SEQRES 7 A 130 ILE TRP ALA VAL LYS GLY PRO LYS GLY GLU ALA VAL GLY SEQRES 8 A 130 SER ILE THR GLN PRO LEU PRO SER SER TYR LEU ILE ILE SEQRES 9 A 130 ARG ALA THR SER GLU SER ASP GLY ARG CYS TRP MET ASP SEQRES 10 A 130 ALA LEU GLU LEU ALA LEU LYS SER GLY PRO SER SER GLY HELIX 1 1 GLU A 109 LEU A 123 1 15 SHEET 1 A 4 MET A 10 ILE A 16 0 SHEET 2 A 4 THR A 24 LYS A 31 -1 O LEU A 30 N MET A 10 SHEET 3 A 4 VAL A 34 TYR A 38 -1 O TYR A 38 N TRP A 27 SHEET 4 A 4 GLY A 48 LEU A 51 -1 O VAL A 50 N LEU A 35 SHEET 1 B 3 GLU A 56 ILE A 57 0 SHEET 2 B 3 CYS A 68 PHE A 72 -1 O PHE A 72 N GLU A 56 SHEET 3 B 3 ILE A 103 ARG A 105 -1 O ILE A 104 N PHE A 69 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