PDB Short entry for 2N73 HEADER TRANSFERASE/TRANSFERASE REGULATOR 02-SEP-15 2N73 TITLE SOLUTION STRUCTURE OF THE ACBD3:PI4KB COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: GOLGI RESIDENT PROTEIN GCP60; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 241-308; COMPND 5 SYNONYM: ACYL-COA-BINDING DOMAIN-CONTAINING PROTEIN 3, GOLGI COMPLEX- COMPND 6 ASSOCIATED PROTEIN 1, GOCAP1, GOLGI PHOSPHOPROTEIN 1, GOLPH1, PBR- COMPND 7 AND PKA-ASSOCIATED PROTEIN 7, PERIPHERAL BENZODIAZEPINE RECEPTOR- COMPND 8 ASSOCIATED PROTEIN PAP7; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: PHOSPHATIDYLINOSITOL 4-KINASE BETA; COMPND 12 CHAIN: B; COMPND 13 FRAGMENT: UNP RESIDUES 5-80; COMPND 14 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: ACBD3, GCP60, GOCAP1, GOLPH1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: PI4KB; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS KINASE, TRANSFERASE-TRANSFERASE REGULATOR COMPLEX EXPDTA SOLUTION NMR NUMMDL 45 AUTHOR V.VEVERKA,R.HEXNEROVA REVDAT 2 14-JUN-23 2N73 1 REMARK SEQADV REVDAT 1 20-JUL-16 2N73 0 JRNL AUTH M.KLIMA,D.J.TOTH,R.HEXNEROVA,A.BAUMLOVA,D.CHALUPSKA, JRNL AUTH 2 J.TYKVART,L.REZABKOVA,N.SENGUPTA,P.MAN,A.DUBANKOVA, JRNL AUTH 3 J.HUMPOLICKOVA,R.NENCKA,V.VEVERKA,T.BALLA,E.BOURA JRNL TITL STRUCTURAL INSIGHTS AND IN VITRO RECONSTITUTION OF MEMBRANE JRNL TITL 2 TARGETING AND ACTIVATION OF HUMAN PI4KB BY THE ACBD3 JRNL TITL 3 PROTEIN. JRNL REF SCI REP V. 6 23641 2016 JRNL REFN ESSN 2045-2322 JRNL PMID 27009356 JRNL DOI 10.1038/SREP23641 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA, CYANA REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), REMARK 3 GUNTERT, MUMENTHALER AND WUTHRICH (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2N73 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1000104504. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.1 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.47 MM [U-13C; U-15N] REMARK 210 PROTEIN_1, 0.47 MM [U-13C; U-15N] REMARK 210 PROTEIN_2, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCACB; 3D CBCA(CO)NH; 3D REMARK 210 HNCO; 3D HN(CO)CA; 2D 1H-15N REMARK 210 HSQC; 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY; 3D HCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 850 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING, MOLECULAR REMARK 210 DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 45 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1710 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL 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: 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 OE1 GLN A 62 HXT GLN A 69 1.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 23 PRO B 125 C - N - CA ANGL. DEV. = -11.0 DEGREES REMARK 500 23 PRO B 125 C - N - CD ANGL. DEV. = 12.9 DEGREES REMARK 500 33 ARG B 107 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 36 ARG B 107 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 36 PRO B 125 C - N - CA ANGL. DEV. = -10.9 DEGREES REMARK 500 36 PRO B 125 C - N - CD ANGL. DEV. = 13.3 DEGREES REMARK 500 39 PRO B 125 C - N - CA ANGL. DEV. = -11.3 DEGREES REMARK 500 39 PRO B 125 C - N - CD ANGL. DEV. = 13.4 DEGREES REMARK 500 41 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 41 PRO B 125 C - N - CA ANGL. DEV. = -13.6 DEGREES REMARK 500 41 PRO B 125 C - N - CD ANGL. DEV. = 15.6 DEGREES REMARK 500 42 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 42 PRO B 120 C - N - CA ANGL. DEV. = -9.4 DEGREES REMARK 500 42 PRO B 125 C - N - CA ANGL. DEV. = -11.5 DEGREES REMARK 500 42 PRO B 125 C - N - CD ANGL. DEV. = 13.7 DEGREES REMARK 500 44 ARG B 107 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 44 PRO B 125 C - N - CA ANGL. DEV. = -11.3 DEGREES REMARK 500 44 PRO B 125 C - N - CD ANGL. DEV. = 13.0 DEGREES REMARK 500 45 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES 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 GLU B 119 -54.17 107.84 REMARK 500 1 LYS B 124 -52.85 98.29 REMARK 500 1 THR B 126 22.71 -146.33 REMARK 500 1 ASN B 136 40.03 -148.30 REMARK 500 1 LEU B 152 -83.88 59.45 REMARK 500 1 SER B 153 85.92 -154.96 REMARK 500 2 LEU B 109 36.12 -143.08 REMARK 500 2 ALA B 112 78.34 -116.72 REMARK 500 2 THR B 116 14.17 57.54 REMARK 500 2 ALA B 121 82.30 57.16 REMARK 500 2 LYS B 124 -14.66 86.64 REMARK 500 2 GLU B 147 21.14 -79.61 REMARK 500 2 LEU B 152 -80.18 -122.30 REMARK 500 3 GLU B 119 -73.81 -154.44 REMARK 500 3 SER B 131 -166.15 59.88 REMARK 500 3 GLU B 147 27.04 47.42 REMARK 500 3 GLU B 151 170.54 64.86 REMARK 500 3 SER B 153 95.83 62.81 REMARK 500 3 VAL B 154 34.22 -78.25 REMARK 500 4 VAL B 104 52.35 -98.30 REMARK 500 4 GLU B 105 160.97 68.11 REMARK 500 4 ARG B 107 24.36 -152.69 REMARK 500 4 VAL B 111 82.33 38.76 REMARK 500 4 ALA B 112 93.00 -68.55 REMARK 500 4 THR B 116 33.43 -83.30 REMARK 500 4 ALA B 121 74.60 -114.99 REMARK 500 4 SER B 127 35.98 -147.52 REMARK 500 4 SER B 140 -152.66 -160.58 REMARK 500 5 GLN A 2 123.08 63.89 REMARK 500 5 ASP B 115 43.53 -79.21 REMARK 500 5 THR B 116 44.99 -86.95 REMARK 500 5 GLU B 119 -60.89 97.82 REMARK 500 5 LYS B 124 -48.63 100.67 REMARK 500 5 THR B 146 75.19 -117.01 REMARK 500 5 LEU B 152 -52.60 65.71 REMARK 500 6 VAL B 111 59.89 -91.39 REMARK 500 6 LYS B 124 -15.33 85.56 REMARK 500 6 LEU B 142 -164.82 58.67 REMARK 500 6 GLU B 147 30.27 -141.66 REMARK 500 6 LEU B 152 112.55 65.40 REMARK 500 6 VAL B 154 32.60 -88.19 REMARK 500 7 LYS A 67 -126.78 -116.40 REMARK 500 7 VAL B 104 30.85 -87.33 REMARK 500 7 GLU B 105 -166.00 61.54 REMARK 500 7 ALA B 110 46.66 -83.57 REMARK 500 7 MET B 113 -124.38 59.16 REMARK 500 7 ASP B 115 89.31 60.59 REMARK 500 7 THR B 116 20.41 -77.61 REMARK 500 7 LYS B 124 -44.30 94.68 REMARK 500 7 ASN B 136 -35.44 -134.09 REMARK 500 REMARK 500 THIS ENTRY HAS 345 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25791 RELATED DB: BMRB REMARK 900 RELATED ID: 2N72 RELATED DB: PDB DBREF 2N73 A 2 69 UNP Q9H3P7 GCP60_HUMAN 241 308 DBREF1 2N73 B 105 180 UNP A0A0B4J1S8_HUMAN DBREF2 2N73 B A0A0B4J1S8 5 80 SEQADV 2N73 MET A 1 UNP Q9H3P7 INITIATING METHIONINE SEQADV 2N73 GLY B 101 UNP A0A0B4J1S EXPRESSION TAG SEQADV 2N73 ALA B 102 UNP A0A0B4J1S EXPRESSION TAG SEQADV 2N73 MET B 103 UNP A0A0B4J1S EXPRESSION TAG SEQADV 2N73 VAL B 104 UNP A0A0B4J1S EXPRESSION TAG SEQRES 1 A 69 MET GLN GLN LYS GLN GLN ILE MET ALA ALA LEU ASN SER SEQRES 2 A 69 GLN THR ALA VAL GLN PHE GLN GLN TYR ALA ALA GLN GLN SEQRES 3 A 69 TYR PRO GLY ASN TYR GLU GLN GLN GLN ILE LEU ILE ARG SEQRES 4 A 69 GLN LEU GLN GLU GLN HIS TYR GLN GLN TYR MET GLN GLN SEQRES 5 A 69 LEU TYR GLN VAL GLN LEU ALA GLN GLN GLN ALA ALA LEU SEQRES 6 A 69 GLN LYS GLN GLN SEQRES 1 B 80 GLY ALA MET VAL GLU ALA ARG SER LEU ALA VAL ALA MET SEQRES 2 B 80 GLY ASP THR VAL VAL GLU PRO ALA PRO LEU LYS PRO THR SEQRES 3 B 80 SER GLU PRO THR SER GLY PRO PRO GLY ASN ASN GLY GLY SEQRES 4 B 80 SER LEU LEU SER VAL ILE THR GLU GLY VAL GLY GLU LEU SEQRES 5 B 80 SER VAL ILE ASP PRO GLU VAL ALA GLN LYS ALA CYS GLN SEQRES 6 B 80 GLU VAL LEU GLU LYS VAL LYS LEU LEU HIS GLY GLY VAL SEQRES 7 B 80 ALA VAL HELIX 1 1 GLN A 3 TYR A 27 1 25 HELIX 2 2 ASN A 30 GLN A 66 1 37 HELIX 3 3 ASP B 156 GLY B 176 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