10 20 30 40 50 60 70 80 2AJ0 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 01-AUG-05 2AJ0
TITLE SOLUTION STRUCTURE OF APOCADA
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE CADMIUM-TRANSPORTING ATPASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN; COMPND 5 SYNONYM: CADA P-TYPE ATPASE, CADMIUM EFFLUX ATPASE; COMPND 6 EC: 3.6.3.3; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LISTERIA MONOCYTOGENES; SOURCE 3 ORGANISM_TAXID: 1639; SOURCE 4 GENE: CADA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: M15; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PQE-60 VECTOR (QIAGEN)
KEYWDS FERRODOXIN-LIKE FOLD, BETA-ALPHA-BETA-BETA-ALPHA-BETA, KEYWDS 2 METAL BINDING PROTEIN, HYDROLASE
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR L.BANCI,I.BERTINI,S.CIOFI-BAFFONI,X.-C.SU,R.MIRAS,N.BAL, AUTHOR 2 E.MINTZ,P.CATTY,J.E.SHOKES,R.A.SCOTT
REVDAT 2 24-FEB-09 2AJ0 1 VERSN REVDAT 1 02-MAY-06 2AJ0 0
JRNL AUTH L.BANCI,I.BERTINI,S.CIOFI-BAFFONI,X.-C.SU,R.MIRAS, JRNL AUTH 2 N.BAL,E.MINTZ,P.CATTY,J.E.SHOKES,R.A.SCOTT JRNL TITL STRUCTURAL BASIS FOR METAL BINDING SPECIFICITY: JRNL TITL 2 THE N-TERMINAL CADMIUM BINDING DOMAIN OF THE JRNL TITL 3 P1-TYPE ATPASE CADA JRNL REF J.MOL.BIOL. V. 356 638 2006 JRNL REFN ISSN 0022-2836 JRNL PMID 16388822 JRNL DOI 10.1016/J.JMB.2005.11.055
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER 5.0 REMARK 3 AUTHORS : PEARLMAN,CASE,CALDWELL,ROSS,CHEATHAM,FERGUSON, REMARK 3 SEIBEL,SINGH,WEINER,KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL REMARK 3 OF 1269 NOE-DERIVED, DISTANCE AND DIHEDRAL ANGLE RESTRAINTS.
REMARK 4 REMARK 4 2AJ0 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-AUG-05. REMARK 100 THE RCSB ID CODE IS RCSB033949.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 350MM SODIUM PHOSPHATE REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2MM CADA N-TERMINAL DOMAIN U- REMARK 210 15N, 350MM SODIUM PHOSPHATE REMARK 210 BUFFER, PH 7, IN THE PRESENCE REMARK 210 OF 5MM TCEP REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, 2D TOCSY, HNHA, REMARK 210 HNHB, 3D_15N-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ, 600 MHZ, 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR, NEASY, DYANA REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 3D 15N REMARK 210 HETEONUCLEAR TECHNIQUES
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 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 3 ARG A 23 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 7 ASP A 10 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 12 ARG A 23 NE - CZ - NH2 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 ALA A 2 -53.66 -173.70 REMARK 500 1 PHE A 38 -162.77 58.46 REMARK 500 1 ALA A 40 61.57 -166.20 REMARK 500 1 SER A 41 -125.03 -155.06 REMARK 500 1 GLU A 48 51.97 -165.88 REMARK 500 1 GLN A 52 -50.69 -29.87 REMARK 500 1 HIS A 62 53.86 71.85 REMARK 500 2 GLU A 3 37.39 -142.77 REMARK 500 2 SER A 13 77.63 -163.80 REMARK 500 2 GLU A 29 85.19 -65.95 REMARK 500 2 ASN A 37 51.89 -140.20 REMARK 500 2 ALA A 40 56.04 -163.40 REMARK 500 2 SER A 41 -113.51 -158.63 REMARK 500 2 GLU A 48 53.76 -166.66 REMARK 500 2 HIS A 62 49.83 73.85 REMARK 500 2 PRO A 67 91.80 -68.01 REMARK 500 3 SER A 13 -43.91 -161.59 REMARK 500 3 PHE A 38 -168.77 56.97 REMARK 500 3 ALA A 40 69.23 76.84 REMARK 500 3 SER A 41 -120.48 -157.42 REMARK 500 3 GLU A 48 48.45 -155.94 REMARK 500 3 HIS A 62 62.29 72.26 REMARK 500 3 LYS A 69 83.17 61.83 REMARK 500 3 GLU A 70 -175.69 82.23 REMARK 500 4 SER A 13 73.56 -161.55 REMARK 500 4 THR A 32 -60.20 -108.34 REMARK 500 4 PHE A 38 -161.47 -100.51 REMARK 500 4 ALA A 40 61.90 -162.35 REMARK 500 4 SER A 41 -129.21 -155.58 REMARK 500 4 GLU A 48 58.34 -170.75 REMARK 500 4 GLN A 52 -52.67 -28.37 REMARK 500 4 LYS A 64 72.43 -116.69 REMARK 500 4 LYS A 69 70.89 76.74 REMARK 500 5 SER A 13 66.11 -174.76 REMARK 500 5 ALA A 40 72.53 -171.97 REMARK 500 5 SER A 41 -121.65 -156.74 REMARK 500 5 GLU A 48 44.80 -163.03 REMARK 500 5 GLU A 68 92.56 -66.58 REMARK 500 6 ALA A 2 65.28 -172.05 REMARK 500 6 SER A 13 67.62 -168.44 REMARK 500 6 ALA A 40 69.36 -175.64 REMARK 500 6 SER A 41 -103.95 -156.02 REMARK 500 6 GLU A 48 55.72 -173.17 REMARK 500 6 ALA A 59 -35.79 -38.86 REMARK 500 6 GLU A 70 89.16 27.38 REMARK 500 7 ALA A 2 -166.67 -171.93 REMARK 500 7 GLU A 3 -158.15 -146.45 REMARK 500 7 SER A 13 63.01 -162.82 REMARK 500 7 THR A 32 -61.25 -124.02 REMARK 500 7 PHE A 38 -161.98 55.99 REMARK 500 7 ALA A 40 55.79 -160.78 REMARK 500 7 SER A 41 -120.63 -155.75 REMARK 500 7 GLU A 48 45.67 -160.05 REMARK 500 7 GLN A 52 -53.50 -29.58 REMARK 500 7 HIS A 62 49.01 76.32 REMARK 500 7 GLU A 70 -69.50 -154.54 REMARK 500 8 GLU A 3 46.06 -140.48 REMARK 500 8 ILE A 35 78.99 -114.88 REMARK 500 8 ALA A 40 53.39 -175.72 REMARK 500 8 SER A 41 -106.94 -157.31 REMARK 500 8 GLU A 48 56.33 -165.11 REMARK 500 8 HIS A 62 60.02 74.03 REMARK 500 9 SER A 13 83.08 -158.22 REMARK 500 9 THR A 32 -62.00 -132.93 REMARK 500 9 PHE A 38 -177.37 58.56 REMARK 500 9 ALA A 40 74.09 69.75 REMARK 500 9 SER A 41 -114.11 -155.20 REMARK 500 9 GLU A 48 59.08 -145.02 REMARK 500 9 GLU A 70 79.62 -68.56 REMARK 500 10 SER A 13 64.91 -161.62 REMARK 500 10 THR A 32 -60.71 -121.58 REMARK 500 10 ALA A 40 34.66 -162.98 REMARK 500 10 SER A 41 -111.38 -146.63 REMARK 500 10 GLU A 48 50.07 -164.30 REMARK 500 10 LEU A 63 -166.53 -77.19 REMARK 500 10 LYS A 64 62.65 -155.53 REMARK 500 10 PRO A 67 83.67 -67.18 REMARK 500 11 GLU A 3 91.48 -65.79 REMARK 500 11 SER A 13 64.19 -165.99 REMARK 500 11 THR A 32 -60.08 -109.32 REMARK 500 11 ALA A 40 -106.37 -125.47 REMARK 500 11 SER A 41 68.58 -157.25 REMARK 500 11 GLU A 48 49.24 -160.40 REMARK 500 12 ALA A 2 -144.54 45.27 REMARK 500 12 GLU A 3 62.09 18.44 REMARK 500 12 SER A 13 51.03 -172.45 REMARK 500 12 GLU A 29 85.70 -65.61 REMARK 500 12 ALA A 40 63.35 68.60 REMARK 500 12 SER A 41 -113.69 -157.09 REMARK 500 12 GLU A 48 54.65 -165.41 REMARK 500 12 HIS A 62 61.39 63.22 REMARK 500 13 THR A 32 -57.97 -140.71 REMARK 500 13 ASN A 37 78.00 -101.21 REMARK 500 13 ALA A 40 67.26 -170.59 REMARK 500 13 SER A 41 -113.06 -152.51 REMARK 500 13 GLU A 48 57.53 -163.80 REMARK 500 13 HIS A 62 57.46 73.03 REMARK 500 13 LYS A 69 -174.66 61.20 REMARK 500 14 THR A 32 -59.83 -126.34 REMARK 500 14 PHE A 38 -168.37 60.18 REMARK 500 14 ALA A 40 47.85 -163.44 REMARK 500 14 SER A 41 -125.33 -143.72 REMARK 500 14 GLU A 48 50.31 -167.11 REMARK 500 15 ALA A 2 127.88 178.98 REMARK 500 15 GLU A 3 -178.95 -176.14 REMARK 500 15 SER A 13 69.90 -152.25 REMARK 500 15 ALA A 40 53.98 -171.78 REMARK 500 15 SER A 41 -112.77 -156.78 REMARK 500 15 GLU A 48 63.59 -165.63 REMARK 500 15 HIS A 62 60.41 83.48 REMARK 500 16 ALA A 2 -63.55 -136.01 REMARK 500 16 GLU A 3 -140.25 62.32 REMARK 500 16 SER A 13 82.63 -167.06 REMARK 500 16 PHE A 38 -171.91 57.81 REMARK 500 16 ALA A 40 72.26 69.88 REMARK 500 16 SER A 41 -109.30 -155.24 REMARK 500 16 GLU A 48 62.77 -151.92 REMARK 500 16 GLN A 52 -53.41 -28.70 REMARK 500 16 GLU A 68 -167.91 46.92 REMARK 500 16 LYS A 69 122.06 62.58 REMARK 500 17 ALA A 2 -72.08 -171.10 REMARK 500 17 GLU A 3 -151.16 59.03 REMARK 500 17 SER A 13 51.21 -167.55 REMARK 500 17 ALA A 40 -103.30 -117.60 REMARK 500 17 SER A 41 51.89 -159.66 REMARK 500 17 GLU A 48 54.87 -152.21 REMARK 500 17 GLN A 52 -50.04 -29.86 REMARK 500 17 GLU A 70 -68.33 -148.98 REMARK 500 18 ALA A 2 65.75 30.33 REMARK 500 18 GLU A 3 178.71 -58.31 REMARK 500 18 SER A 13 -82.66 -64.41 REMARK 500 18 CYS A 14 -167.52 -172.71 REMARK 500 18 THR A 32 -57.95 -141.83 REMARK 500 18 ALA A 40 -105.99 -119.75 REMARK 500 18 SER A 41 60.51 -159.47 REMARK 500 18 GLU A 48 49.16 -159.97 REMARK 500 18 HIS A 62 55.45 73.71 REMARK 500 18 LYS A 69 -65.58 71.55 REMARK 500 18 GLU A 70 -53.55 -168.24 REMARK 500 19 ALA A 2 -99.35 -171.45 REMARK 500 19 SER A 13 60.24 -171.08 REMARK 500 19 GLU A 29 95.12 -65.08 REMARK 500 19 SER A 41 -121.44 -155.53 REMARK 500 19 GLU A 48 56.94 -163.57 REMARK 500 19 HIS A 62 60.57 74.59 REMARK 500 19 GLU A 68 84.48 -56.97 REMARK 500 19 GLU A 70 71.43 56.27 REMARK 500 20 ALA A 2 65.95 29.51 REMARK 500 20 GLU A 3 179.12 -58.91 REMARK 500 20 SER A 13 -82.35 -64.88 REMARK 500 20 CYS A 14 -167.67 -172.46 REMARK 500 20 THR A 32 -57.47 -143.91 REMARK 500 20 ALA A 40 -105.43 -119.40 REMARK 500 20 SER A 41 59.96 -159.97 REMARK 500 20 GLU A 48 49.22 -159.86 REMARK 500 20 HIS A 62 55.24 74.13 REMARK 500 20 LYS A 69 -65.89 71.69 REMARK 500 20 GLU A 70 -54.03 -167.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 70 ALA A 71 7 145.95 REMARK 500 GLU A 70 ALA A 71 17 146.72 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 2 TYR A 7 0.09 SIDE_CHAIN REMARK 500 2 ARG A 8 0.08 SIDE_CHAIN REMARK 500 4 TYR A 7 0.09 SIDE_CHAIN REMARK 500 4 ARG A 8 0.09 SIDE_CHAIN REMARK 500 4 ARG A 23 0.08 SIDE_CHAIN REMARK 500 5 PHE A 21 0.17 SIDE_CHAIN REMARK 500 6 TYR A 7 0.10 SIDE_CHAIN REMARK 500 6 PHE A 21 0.12 SIDE_CHAIN REMARK 500 7 TYR A 7 0.07 SIDE_CHAIN REMARK 500 8 ARG A 8 0.14 SIDE_CHAIN REMARK 500 9 PHE A 21 0.14 SIDE_CHAIN REMARK 500 11 ARG A 8 0.09 SIDE_CHAIN REMARK 500 12 TYR A 7 0.11 SIDE_CHAIN REMARK 500 13 PHE A 21 0.14 SIDE_CHAIN REMARK 500 15 TYR A 7 0.09 SIDE_CHAIN REMARK 500 15 ARG A 8 0.08 SIDE_CHAIN REMARK 500 16 PHE A 21 0.10 SIDE_CHAIN REMARK 500 17 PHE A 21 0.16 SIDE_CHAIN REMARK 500 18 TYR A 7 0.09 SIDE_CHAIN REMARK 500 18 PHE A 21 0.18 SIDE_CHAIN REMARK 500 19 TYR A 7 0.11 SIDE_CHAIN REMARK 500 19 ARG A 8 0.10 SIDE_CHAIN REMARK 500 20 TYR A 7 0.09 SIDE_CHAIN REMARK 500 20 PHE A 21 0.18 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2AJ1 RELATED DB: PDB REMARK 900 THE MINIMIZED AVERAGE STRUCTURE OF THE SAME PROTEIN
DBREF 2AJ0 A 1 71 UNP Q60048 CADA2_LISMO 1 71
SEQADV 2AJ0 ALA A 71 UNP Q60048 SER 71 ENGINEERED
SEQRES 1 A 71 MET ALA GLU LYS THR VAL TYR ARG VAL ASP GLY LEU SER SEQRES 2 A 71 CYS THR ASN CYS ALA ALA LYS PHE GLU ARG ASN VAL LYS SEQRES 3 A 71 GLU ILE GLU GLY VAL THR GLU ALA ILE VAL ASN PHE GLY SEQRES 4 A 71 ALA SER LYS ILE THR VAL THR GLY GLU ALA SER ILE GLN SEQRES 5 A 71 GLN VAL GLU GLN ALA GLY ALA PHE GLU HIS LEU LYS ILE SEQRES 6 A 71 ILE PRO GLU LYS GLU ALA
HELIX 1 1 CYS A 14 ILE A 28 1 15 HELIX 2 2 SER A 50 ALA A 59 1 10
SHEET 1 A 4 VAL A 31 VAL A 36 0 SHEET 2 A 4 SER A 41 GLY A 47 -1 O THR A 44 N ILE A 35 SHEET 3 A 4 LYS A 4 ASP A 10 -1 N THR A 5 O VAL A 45 SHEET 4 A 4 LYS A 64 ILE A 66 -1 O ILE A 66 N ARG A 8
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