HEADER HYDROLASE 06-MAY-09 2KIJ TITLE SOLUTION STRUCTURE OF THE ACTUATOR DOMAIN OF THE COPPER-TRANSPORTING TITLE 2 ATPASE ATP7A COMPND MOL_ID: 1; COMPND 2 MOLECULE: COPPER-TRANSPORTING ATPASE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ACTUATOR DOMAIN, UNP RESIDUES 806-924; COMPND 5 SYNONYM: COPPER PUMP 1, MENKES DISEASE-ASSOCIATED PROTEIN; COMPND 6 EC: 3.6.3.4; 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) GOLD; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PETG-20A (EMBL) KEYWDS ACTUATOR, ATP7A, MENKES DISEASE, ALTERNATIVE SPLICING, ATP-BINDING, KEYWDS 2 CELL MEMBRANE, COPPER, COPPER TRANSPORT, CYTOPLASM, DISEASE KEYWDS 3 MUTATION, ENDOPLASMIC RETICULUM, GLYCOPROTEIN, GOLGI APPARATUS, KEYWDS 4 HYDROLASE, ION TRANSPORT, MAGNESIUM, MEMBRANE, METAL-BINDING, KEYWDS 5 NUCLEOTIDE-BINDING, PHOSPHOPROTEIN, POLYMORPHISM, TRANSMEMBRANE, KEYWDS 6 TRANSPORT EXPDTA SOLUTION NMR NUMMDL 30 AUTHOR L.BANCI,I.BERTINI,F.CANTINI,M.MIGLIARDI,F.NUSHI,G.NATILE,A.ROSATO REVDAT 4 14-JUN-23 2KIJ 1 REMARK REVDAT 3 26-FEB-20 2KIJ 1 REMARK SEQADV REVDAT 2 01-SEP-09 2KIJ 1 JRNL REVDAT 1 25-AUG-09 2KIJ 0 JRNL AUTH L.BANCI,I.BERTINI,F.CANTINI,M.MIGLIARDI,G.NATILE,F.NUSHI, JRNL AUTH 2 A.ROSATO JRNL TITL SOLUTION STRUCTURES OF THE ACTUATOR DOMAIN OF ATP7A AND JRNL TITL 2 ATP7B, THE MENKES AND WILSON DISEASE PROTEINS JRNL REF BIOCHEMISTRY V. 48 7849 2009 JRNL REFN ISSN 0006-2960 JRNL PMID 19645496 JRNL DOI 10.1021/BI901003K REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 2.1, AMBER REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), CASE, DARDEN, CHEATHAM, REMARK 3 III, SIMMERLING, WANG, DUKE, LUO, ... AND KOLLM REMARK 3 (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES WERE BASED ON A TOTAL OF REMARK 3 1992 MEANINGFUL DISTANCE CONSTRAINTS, 125 DIHEDRAL ANGLE AND 102 REMARK 3 ONE-BOND 1H-15N DIPOLAR COUPLINGS REMARK 4 REMARK 4 2KIJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-MAY-09. REMARK 100 THE DEPOSITION ID IS D_1000101163. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : PHOSPHATE, ARGININE, GLUTAMATE REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.3 MM ACTD-1, 90% H2O/10% D2O; REMARK 210 0.3 MM [U-13C; U-15N] ACTD-2, 90% REMARK 210 H2O/10% D2O; 0.3 MM [U-15N] REMARK 210 ACTD-3, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-1H TOCSY; 2D 1H-1H NOESY; REMARK 210 3D HNCO; 3D HNCACB; 3D CBCA(CO) REMARK 210 NH; 3D HCCH-TOCSY; 3D 1H-15N REMARK 210 NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 800 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 2.1, CARA, XEASY, CYANA REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 500 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 30 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-30 REMARK 465 RES C SSSEQI REMARK 465 GLY A -4 REMARK 465 SER A -3 REMARK 465 PHE A -2 REMARK 465 THR A -1 REMARK 465 MET A 0 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: 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 1 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 2 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 3 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 3 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 5 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 6 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 6 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 7 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 8 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 8 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 9 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 10 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 10 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 11 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 11 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 12 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 12 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 15 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 16 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES REMARK 500 16 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 17 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 18 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 18 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 19 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 19 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 20 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 20 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 22 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 23 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 24 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 25 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 25 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 26 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 26 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 27 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 29 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 29 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 30 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 30 ARG A 56 NE - CZ - NH1 ANGL. DEV. = 4.7 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 SER A 22 -60.11 -133.34 REMARK 500 1 ARG A 39 31.27 -76.27 REMARK 500 1 ILE A 58 30.41 -141.07 REMARK 500 1 GLU A 59 144.97 -170.62 REMARK 500 1 HIS A 61 41.76 -152.10 REMARK 500 1 ASN A 92 87.30 46.54 REMARK 500 1 SER A 94 108.61 40.10 REMARK 500 2 ASP A 23 58.78 -8.96 REMARK 500 2 ASN A 24 -9.78 59.38 REMARK 500 2 ARG A 39 47.13 -74.71 REMARK 500 2 LYS A 50 158.87 61.88 REMARK 500 2 ILE A 58 29.34 -140.05 REMARK 500 2 GLU A 72 -167.73 -74.80 REMARK 500 2 ALA A 73 13.35 -143.91 REMARK 500 2 ASN A 92 -38.20 -157.92 REMARK 500 3 ASP A 23 75.38 -32.56 REMARK 500 3 ASN A 24 -23.25 60.19 REMARK 500 3 LEU A 26 -80.19 -117.56 REMARK 500 3 LEU A 27 135.57 61.26 REMARK 500 3 ARG A 39 26.03 -68.69 REMARK 500 3 ILE A 58 30.21 -142.86 REMARK 500 3 GLN A 91 -72.96 -84.89 REMARK 500 3 SER A 94 85.37 32.29 REMARK 500 4 SER A 22 -73.35 -135.20 REMARK 500 4 ASP A 23 64.39 -164.25 REMARK 500 4 ASN A 24 -11.11 54.98 REMARK 500 4 ILE A 58 31.32 -142.70 REMARK 500 4 ASN A 92 -1.48 87.89 REMARK 500 5 ASP A 21 20.77 -147.36 REMARK 500 5 SER A 22 -73.83 -142.04 REMARK 500 5 ASP A 23 50.28 -160.99 REMARK 500 5 ASN A 24 -18.59 64.70 REMARK 500 5 ILE A 58 33.48 -140.37 REMARK 500 5 GLN A 91 -125.69 -85.73 REMARK 500 6 SER A 22 -93.47 -128.89 REMARK 500 6 ASP A 23 58.45 -142.01 REMARK 500 6 ASN A 24 -9.55 56.81 REMARK 500 6 ILE A 58 30.81 -141.52 REMARK 500 6 SER A 67 -4.81 -59.73 REMARK 500 6 GLU A 72 -177.33 -64.30 REMARK 500 6 PRO A 75 153.87 -48.80 REMARK 500 6 GLN A 91 115.27 -160.47 REMARK 500 6 ASN A 92 -46.00 147.79 REMARK 500 7 ASP A 23 61.96 -23.88 REMARK 500 7 ASN A 24 -26.64 63.74 REMARK 500 7 ARG A 39 23.80 -77.64 REMARK 500 7 ILE A 58 31.12 -140.06 REMARK 500 7 HIS A 61 32.40 -143.53 REMARK 500 7 GLU A 72 -177.59 -60.02 REMARK 500 7 ALA A 73 -20.68 -143.69 REMARK 500 REMARK 500 THIS ENTRY HAS 193 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 21 ARG A 39 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16277 RELATED DB: BMRB DBREF 2KIJ A 1 119 UNP Q04656 ATP7A_HUMAN 806 924 SEQADV 2KIJ GLY A -4 UNP Q04656 EXPRESSION TAG SEQADV 2KIJ SER A -3 UNP Q04656 EXPRESSION TAG SEQADV 2KIJ PHE A -2 UNP Q04656 EXPRESSION TAG SEQADV 2KIJ THR A -1 UNP Q04656 EXPRESSION TAG SEQADV 2KIJ MET A 0 UNP Q04656 EXPRESSION TAG SEQRES 1 A 124 GLY SER PHE THR MET SER GLU ALA LEU ALA LYS LEU ILE SEQRES 2 A 124 SER LEU GLN ALA THR GLU ALA THR ILE VAL THR LEU ASP SEQRES 3 A 124 SER ASP ASN ILE LEU LEU SER GLU GLU GLN VAL ASP VAL SEQRES 4 A 124 GLU LEU VAL GLN ARG GLY ASP ILE ILE LYS VAL VAL PRO SEQRES 5 A 124 GLY GLY LYS PHE PRO VAL ASP GLY ARG VAL ILE GLU GLY SEQRES 6 A 124 HIS SER MET VAL ASP GLU SER LEU ILE THR GLY GLU ALA SEQRES 7 A 124 MET PRO VAL ALA LYS LYS PRO GLY SER THR VAL ILE ALA SEQRES 8 A 124 GLY SER ILE ASN GLN ASN GLY SER LEU LEU ILE CYS ALA SEQRES 9 A 124 THR HIS VAL GLY ALA ASP THR THR LEU SER GLN ILE VAL SEQRES 10 A 124 LYS LEU VAL GLU GLU ALA GLN HELIX 1 1 GLU A 2 LEU A 10 1 9 HELIX 2 2 THR A 106 VAL A 115 1 10 SHEET 1 A 6 SER A 28 ASP A 33 0 SHEET 2 A 6 GLU A 14 THR A 19 -1 N THR A 19 O SER A 28 SHEET 3 A 6 ILE A 42 LYS A 44 -1 O LYS A 44 N THR A 16 SHEET 4 A 6 LEU A 96 ALA A 99 -1 O ILE A 97 N ILE A 43 SHEET 5 A 6 GLY A 55 VAL A 57 -1 N ARG A 56 O CYS A 98 SHEET 6 A 6 SER A 82 VAL A 84 -1 O SER A 82 N VAL A 57 SHEET 1 B 3 VAL A 76 ALA A 77 0 SHEET 2 B 3 MET A 63 ASP A 65 -1 N VAL A 64 O VAL A 76 SHEET 3 B 3 ILE A 89 GLN A 91 -1 O ILE A 89 N ASP A 65 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 MODEL 1