PDB Short entry for 2BY4 HEADER HYDROLASE 28-JUL-05 2BY4 TITLE SR CA(2+)-ATPASE IN THE HNE2 STATE COMPLEXED WITH THE THAPSIGARGIN TITLE 2 DERIVATIVE BOC-12ADT. COMPND MOL_ID: 1; COMPND 2 MOLECULE: SARCOPLASMIC/ENDOPLASMIC RETICULUM CALCIUM ATPASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SERCA1A, CALCIUM PUMP 1, SERCA1, SR CA(2+)-ATPASE 1, COMPND 5 CALCIUM-TRANSPORTING ATPASE SARCOPLASMIC RETICULUM TYPE FAST TWITCH COMPND 6 SKELETAL MUSCLE ISOFORM, ENDOPLASMIC RETICULUM CLASS 1/2 CA(2+) COMPND 7 ATPASE; COMPND 8 EC: 3.6.3.8; COMPND 9 OTHER_DETAILS: E2 STATE STABILIZED BY THE THAPSIGARGIN DERIVATIVE COMPND 10 BOC-12ADT SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYCTOLAGUS CUNICULUS; SOURCE 3 ORGANISM_COMMON: RABBIT; SOURCE 4 ORGANISM_TAXID: 9986; SOURCE 5 ORGAN: SKELETAL MUSCLE; SOURCE 6 TISSUE: FAST TWITCH SKELETAL MUSCLE KEYWDS SERCA, P-TYPE ATPASE, CA2+-ATPASE, THAPSIGARGIN, PROSTATE CANCER, KEYWDS 2 ATP-BINDING, CALCIUM, CALCIUM TRANSPORT, ENDOPLASMIC RETICULUM, KEYWDS 3 HYDROLASE, ION TRANSPORT, MAGNESIUM, METAL-BINDING, MULTIGENE KEYWDS 4 FAMILY, NUCLEOTIDE-BINDING, PHOSPHORYLATION, SARCOPLASMIC RETICULUM, KEYWDS 5 TRANSMEMBRANE, TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR A.L.JENSEN,J.V.MOLLER,H.SOEHOEL,S.R.DENMEADE,J.T.ISAACS,C.E.OLSEN, AUTHOR 2 S.B.CHRISTENSEN,P.NISSEN REVDAT 3 13-DEC-23 2BY4 1 LINK REVDAT 2 24-FEB-09 2BY4 1 VERSN REVDAT 1 07-APR-06 2BY4 0 JRNL AUTH H.SOEHOEL,A.L.JENSEN,J.V.MOLLER,P.NISSEN,S.R.DENMEADE, JRNL AUTH 2 J.T.ISAACS,C.E.OLSEN,S.B.CHRISTENSEN JRNL TITL NATURAL PRODUCTS AS STARTING MATERIALS FOR DEVELOPMENT OF JRNL TITL 2 SECOND-GENERATION SERCA INHIBITORS TARGETED TOWARDS PROSTATE JRNL TITL 3 CANCER CELLS JRNL REF BIOORG.MED.CHEM. V. 14 2810 2006 JRNL REFN ISSN 0968-0896 JRNL PMID 16412648 JRNL DOI 10.1016/J.BMC.2005.12.001 REMARK 2 REMARK 2 RESOLUTION. 3.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2057599.080 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 81.9 REMARK 3 NUMBER OF REFLECTIONS : 20134 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.254 REMARK 3 FREE R VALUE : 0.314 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 610 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.013 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.50 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 64.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2493 REMARK 3 BIN R VALUE (WORKING SET) : 0.3700 REMARK 3 BIN FREE R VALUE : 0.3920 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 2.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 74 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.046 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7671 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 96 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 80.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.45000 REMARK 3 B22 (A**2) : 4.45000 REMARK 3 B33 (A**2) : -8.90000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.53 REMARK 3 ESD FROM SIGMAA (A) : 0.70 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.71 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.71 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.700 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.050 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.380 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 4.370 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.990 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 5.240 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.25 REMARK 3 BSOL : 20.23 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : LIGANDS_ADT3.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : LIGANDS_ADT3.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2BY4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-JUL-05. REMARK 100 THE DEPOSITION ID IS D_1290025100. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-DEC-04 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.80 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.7 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20425 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.300 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 82.0 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.16000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.43 REMARK 200 COMPLETENESS FOR SHELL (%) : 62.3 REMARK 200 DATA REDUNDANCY IN SHELL : 1.70 REMARK 200 R MERGE FOR SHELL (I) : 0.67000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1IWO REMARK 200 REMARK 200 REMARK: DATA COLLECTION WAS HAMPERED BY A 594 A CELL AXIS. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6 MG/ML SERCA IN 6% PEG2000 MME, 100MM REMARK 280 MGSO4, 3% MPD, 40 MM KCL, 50 MM MOPS PH 6.8, 10% GLYCEROL, 0.5 REMARK 280 MM AMPPCP, 1 MM EGTA, 62.5 MICROM BOC-12ADT., PH 6.80 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 296.82800 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 35.86950 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 35.86950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 148.41400 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 35.86950 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 35.86950 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 445.24200 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 35.86950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 35.86950 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 148.41400 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 35.86950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 35.86950 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 445.24200 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 296.82800 REMARK 290 REMARK 290 REMARK: NULL 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 400 REMARK 400 COMPOUND REMARK 400 PROTEIN INVOLVED IN HYDROLYSIS OF ATP RESULTING IN REMARK 400 TRANSPORT OF CALCIUM FROM THE CYTOSOL TO THE REMARK 400 SARCOPLASMIC RETICULUM LUMEN REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 N LYS A 480 O SER A 499 2.11 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 PRO A 337 C - N - CA ANGL. DEV. = 31.6 DEGREES REMARK 500 PRO A 337 C - N - CD ANGL. DEV. = -47.0 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 ALA A 3 24.79 -78.24 REMARK 500 ALA A 14 -72.51 -71.24 REMARK 500 PRO A 26 -18.62 -40.18 REMARK 500 PRO A 42 138.08 -34.13 REMARK 500 GLN A 56 -7.91 -59.77 REMARK 500 ALA A 76 22.63 -60.96 REMARK 500 TRP A 77 27.04 -144.16 REMARK 500 ASN A 101 -74.61 -77.21 REMARK 500 LYS A 120 -2.71 -50.91 REMARK 500 ASP A 133 31.36 -96.81 REMARK 500 ARG A 134 149.59 165.78 REMARK 500 ILE A 140 -158.17 -107.19 REMARK 500 ALA A 142 -54.44 -20.50 REMARK 500 ASP A 144 1.71 -69.93 REMARK 500 ASP A 149 147.54 -37.51 REMARK 500 ALA A 161 153.47 59.42 REMARK 500 SER A 178 -78.64 -21.37 REMARK 500 ARG A 198 52.95 -90.70 REMARK 500 ASN A 201 -54.23 -25.32 REMARK 500 LYS A 218 109.22 -173.26 REMARK 500 GLU A 231 -48.66 -28.77 REMARK 500 ARG A 236 -39.03 -33.95 REMARK 500 PRO A 248 8.07 -52.00 REMARK 500 ASN A 275 43.70 -108.99 REMARK 500 HIS A 278 -0.05 -51.65 REMARK 500 ASP A 281 -8.42 -164.28 REMARK 500 SER A 287 9.63 -64.06 REMARK 500 TRP A 288 -80.67 -57.23 REMARK 500 ILE A 289 -36.32 -27.74 REMARK 500 VAL A 304 1.11 -65.62 REMARK 500 GLU A 309 -75.01 -29.94 REMARK 500 LYS A 329 40.14 -84.16 REMARK 500 ASN A 330 -9.13 57.40 REMARK 500 PRO A 337 -3.22 167.53 REMARK 500 LYS A 352 -82.01 -90.40 REMARK 500 THR A 353 -72.60 -22.10 REMARK 500 ASN A 359 47.63 73.77 REMARK 500 PHE A 367 120.03 -179.55 REMARK 500 LYS A 371 145.44 -178.82 REMARK 500 SER A 378 112.66 -161.07 REMARK 500 PRO A 391 63.34 -70.00 REMARK 500 ASP A 399 15.48 58.97 REMARK 500 PRO A 401 154.87 -44.28 REMARK 500 LEU A 413 -38.96 -38.53 REMARK 500 CYS A 420 46.67 -87.50 REMARK 500 SER A 424 -157.75 -160.69 REMARK 500 LYS A 436 95.04 -68.23 REMARK 500 ASN A 453 95.85 -31.86 REMARK 500 ASN A 456 45.40 35.22 REMARK 500 SER A 463 -172.85 -58.58 REMARK 500 REMARK 500 THIS ENTRY HAS 106 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1997 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 439 OE2 REMARK 620 2 ACP A1996 O2B 144.4 REMARK 620 N 1 REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1997 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1998 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A1999 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AD4 A1995 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACP A1996 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FQU RELATED DB: PDB REMARK 900 STRUCTURE OF CALCIUM ATPASE IN THE ABSENCE OF CALCIUM IONS REMARK 900 RELATED ID: 1IWO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SR CA2+-ATPASE IN THE ABSENCE OFCA2+ REMARK 900 RELATED ID: 1KJU RELATED DB: PDB REMARK 900 CA2+-ATPASE IN THE E2 STATE REMARK 900 RELATED ID: 1SU4 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CALCIUM ATPASE WITH TWO BOUND CALCIUMIONS REMARK 900 RELATED ID: 1T5S RELATED DB: PDB REMARK 900 STRUCTURE OF THE (SR)CA2+-ATPASE CA2-E1-AMPPCP FORM REMARK 900 RELATED ID: 1T5T RELATED DB: PDB REMARK 900 STRUCTURE OF THE (SR)CA2+-ATPASE CA2-E1-ADP:ALF4-FORM REMARK 900 RELATED ID: 1VFP RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SR CA2+-ATPASE WITH BOUND AMPPCP REMARK 900 RELATED ID: 1WPE RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SR CALCIUM PUMP WITH BOUNDALUMINIUM REMARK 900 FLUORIDE, ADP AND CALCIUM REMARK 900 RELATED ID: 1WPG RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SR CA2+-ATPASE WITH MGF4 REMARK 900 RELATED ID: 1XP5 RELATED DB: PDB REMARK 900 STRUCTURE OF THE (SR)CA2+-ATPASE E2-ALF4 - FORM REMARK 900 RELATED ID: 2AGV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SR CA2+-ATPASE WITH BHQ AND TG REMARK 900 RELATED ID: 2C88 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF (SR) CALCIUM-ATPASE E2 (TG):AMPPCP FORM REMARK 900 RELATED ID: 2C8K RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF (SR) CALCIUM-ATPASE E2 (TG) WITH PARTIALLY REMARK 900 OCCUPIED AMPPCP SITE REMARK 900 RELATED ID: 2C8L RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF (SR) CALCIUM-ATPASE E2 (TG) FORM REMARK 900 RELATED ID: 2C9M RELATED DB: PDB REMARK 900 STRUCTURE OF (SR) CALCIUM-ATPASE IN THE CA2E1 STATE SOLVED IN A P1 REMARK 900 CRYSTAL FORM. DBREF 2BY4 A 1 994 UNP P04191 AT2A1_RABIT 1 994 SEQRES 1 A 994 MET GLU ALA ALA HIS SER LYS SER THR GLU GLU CYS LEU SEQRES 2 A 994 ALA TYR PHE GLY VAL SER GLU THR THR GLY LEU THR PRO SEQRES 3 A 994 ASP GLN VAL LYS ARG HIS LEU GLU LYS TYR GLY HIS ASN SEQRES 4 A 994 GLU LEU PRO ALA GLU GLU GLY LYS SER LEU TRP GLU LEU SEQRES 5 A 994 VAL ILE GLU GLN PHE GLU ASP LEU LEU VAL ARG ILE LEU SEQRES 6 A 994 LEU LEU ALA ALA CYS ILE SER PHE VAL LEU ALA TRP PHE SEQRES 7 A 994 GLU GLU GLY GLU GLU THR ILE THR ALA PHE VAL GLU PRO SEQRES 8 A 994 PHE VAL ILE LEU LEU ILE LEU ILE ALA ASN ALA ILE VAL SEQRES 9 A 994 GLY VAL TRP GLN GLU ARG ASN ALA GLU ASN ALA ILE GLU SEQRES 10 A 994 ALA LEU LYS GLU TYR GLU PRO GLU MET GLY LYS VAL TYR SEQRES 11 A 994 ARG ALA ASP ARG LYS SER VAL GLN ARG ILE LYS ALA ARG SEQRES 12 A 994 ASP ILE VAL PRO GLY ASP ILE VAL GLU VAL ALA VAL GLY SEQRES 13 A 994 ASP LYS VAL PRO ALA ASP ILE ARG ILE LEU SER ILE LYS SEQRES 14 A 994 SER THR THR LEU ARG VAL ASP GLN SER ILE LEU THR GLY SEQRES 15 A 994 GLU SER VAL SER VAL ILE LYS HIS THR GLU PRO VAL PRO SEQRES 16 A 994 ASP PRO ARG ALA VAL ASN GLN ASP LYS LYS ASN MET LEU SEQRES 17 A 994 PHE SER GLY THR ASN ILE ALA ALA GLY LYS ALA LEU GLY SEQRES 18 A 994 ILE VAL ALA THR THR GLY VAL SER THR GLU ILE GLY LYS SEQRES 19 A 994 ILE ARG ASP GLN MET ALA ALA THR GLU GLN ASP LYS THR SEQRES 20 A 994 PRO LEU GLN GLN LYS LEU ASP GLU PHE GLY GLU GLN LEU SEQRES 21 A 994 SER LYS VAL ILE SER LEU ILE CYS VAL ALA VAL TRP LEU SEQRES 22 A 994 ILE ASN ILE GLY HIS PHE ASN ASP PRO VAL HIS GLY GLY SEQRES 23 A 994 SER TRP ILE ARG GLY ALA ILE TYR TYR PHE LYS ILE ALA SEQRES 24 A 994 VAL ALA LEU ALA VAL ALA ALA ILE PRO GLU GLY LEU PRO SEQRES 25 A 994 ALA VAL ILE THR THR CYS LEU ALA LEU GLY THR ARG ARG SEQRES 26 A 994 MET ALA LYS LYS ASN ALA ILE VAL ARG SER LEU PRO SER SEQRES 27 A 994 VAL GLU THR LEU GLY CYS THR SER VAL ILE CYS SER ASP SEQRES 28 A 994 LYS THR GLY THR LEU THR THR ASN GLN MET SER VAL CYS SEQRES 29 A 994 LYS MET PHE ILE ILE ASP LYS VAL ASP GLY ASP PHE CYS SEQRES 30 A 994 SER LEU ASN GLU PHE SER ILE THR GLY SER THR TYR ALA SEQRES 31 A 994 PRO GLU GLY GLU VAL LEU LYS ASN ASP LYS PRO ILE ARG SEQRES 32 A 994 SER GLY GLN PHE ASP GLY LEU VAL GLU LEU ALA THR ILE SEQRES 33 A 994 CYS ALA LEU CYS ASN ASP SER SER LEU ASP PHE ASN GLU SEQRES 34 A 994 THR LYS GLY VAL TYR GLU LYS VAL GLY GLU ALA THR GLU SEQRES 35 A 994 THR ALA LEU THR THR LEU VAL GLU LYS MET ASN VAL PHE SEQRES 36 A 994 ASN THR GLU VAL ARG ASN LEU SER LYS VAL GLU ARG ALA SEQRES 37 A 994 ASN ALA CYS ASN SER VAL ILE ARG GLN LEU MET LYS LYS SEQRES 38 A 994 GLU PHE THR LEU GLU PHE SER ARG ASP ARG LYS SER MET SEQRES 39 A 994 SER VAL TYR CYS SER PRO ALA LYS SER SER ARG ALA ALA SEQRES 40 A 994 VAL GLY ASN LYS MET PHE VAL LYS GLY ALA PRO GLU GLY SEQRES 41 A 994 VAL ILE ASP ARG CYS ASN TYR VAL ARG VAL GLY THR THR SEQRES 42 A 994 ARG VAL PRO MET THR GLY PRO VAL LYS GLU LYS ILE LEU SEQRES 43 A 994 SER VAL ILE LYS GLU TRP GLY THR GLY ARG ASP THR LEU SEQRES 44 A 994 ARG CYS LEU ALA LEU ALA THR ARG ASP THR PRO PRO LYS SEQRES 45 A 994 ARG GLU GLU MET VAL LEU ASP ASP SER SER ARG PHE MET SEQRES 46 A 994 GLU TYR GLU THR ASP LEU THR PHE VAL GLY VAL VAL GLY SEQRES 47 A 994 MET LEU ASP PRO PRO ARG LYS GLU VAL MET GLY SER ILE SEQRES 48 A 994 GLN LEU CYS ARG ASP ALA GLY ILE ARG VAL ILE MET ILE SEQRES 49 A 994 THR GLY ASP ASN LYS GLY THR ALA ILE ALA ILE CYS ARG SEQRES 50 A 994 ARG ILE GLY ILE PHE GLY GLU ASN GLU GLU VAL ALA ASP SEQRES 51 A 994 ARG ALA TYR THR GLY ARG GLU PHE ASP ASP LEU PRO LEU SEQRES 52 A 994 ALA GLU GLN ARG GLU ALA CYS ARG ARG ALA CYS CYS PHE SEQRES 53 A 994 ALA ARG VAL GLU PRO SER HIS LYS SER LYS ILE VAL GLU SEQRES 54 A 994 TYR LEU GLN SER TYR ASP GLU ILE THR ALA MET THR GLY SEQRES 55 A 994 ASP GLY VAL ASN ASP ALA PRO ALA LEU LYS LYS ALA GLU SEQRES 56 A 994 ILE GLY ILE ALA MET GLY SER GLY THR ALA VAL ALA LYS SEQRES 57 A 994 THR ALA SER GLU MET VAL LEU ALA ASP ASP ASN PHE SER SEQRES 58 A 994 THR ILE VAL ALA ALA VAL GLU GLU GLY ARG ALA ILE TYR SEQRES 59 A 994 ASN ASN MET LYS GLN PHE ILE ARG TYR LEU ILE SER SER SEQRES 60 A 994 ASN VAL GLY GLU VAL VAL CYS ILE PHE LEU THR ALA ALA SEQRES 61 A 994 LEU GLY LEU PRO GLU ALA LEU ILE PRO VAL GLN LEU LEU SEQRES 62 A 994 TRP VAL ASN LEU VAL THR ASP GLY LEU PRO ALA THR ALA SEQRES 63 A 994 LEU GLY PHE ASN PRO PRO ASP LEU ASP ILE MET ASP ARG SEQRES 64 A 994 PRO PRO ARG SER PRO LYS GLU PRO LEU ILE SER GLY TRP SEQRES 65 A 994 LEU PHE PHE ARG TYR MET ALA ILE GLY GLY TYR VAL GLY SEQRES 66 A 994 ALA ALA THR VAL GLY ALA ALA ALA TRP TRP PHE MET TYR SEQRES 67 A 994 ALA GLU ASP GLY PRO GLY VAL THR TYR HIS GLN LEU THR SEQRES 68 A 994 HIS PHE MET GLN CYS THR GLU ASP HIS PRO HIS PHE GLU SEQRES 69 A 994 GLY LEU ASP CYS GLU ILE PHE GLU ALA PRO GLU PRO MET SEQRES 70 A 994 THR MET ALA LEU SER VAL LEU VAL THR ILE GLU MET CYS SEQRES 71 A 994 ASN ALA LEU ASN SER LEU SER GLU ASN GLN SER LEU MET SEQRES 72 A 994 ARG MET PRO PRO TRP VAL ASN ILE TRP LEU LEU GLY SER SEQRES 73 A 994 ILE CYS LEU SER MET SER LEU HIS PHE LEU ILE LEU TYR SEQRES 74 A 994 VAL ASP PRO LEU PRO MET ILE PHE LYS LEU LYS ALA LEU SEQRES 75 A 994 ASP LEU THR GLN TRP LEU MET VAL LEU LYS ILE SER LEU SEQRES 76 A 994 PRO VAL ILE GLY LEU ASP GLU ILE LEU LYS PHE ILE ALA SEQRES 77 A 994 ARG ASN TYR LEU GLU GLY HET AD4 A1995 62 HET ACP A1996 31 HET MG A1997 1 HET MG A1998 1 HET NA A1999 1 HETNAM AD4 (3S,3AR,4S,6S,6AR,7S,8S,9BS)-6-(ACETYLOXY)-3,3A- HETNAM 2 AD4 DIHYDROXY-3,6,9-TRIMETHYL-8-{[(2Z)-2-METHYLBUT-2- HETNAM 3 AD4 ENOYL]OXY}-7-(OCTANOYLOXY)-2-OXO-2,3,3A,4,5,6,6A,7,8, HETNAM 4 AD4 9B-DECAHYDROAZULENO[4,5-B]FURAN-4-YL 12-[(TERT- HETNAM 5 AD4 BUTOXYCARBONYL)AMINO]DODECANOATE HETNAM ACP PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETSYN AD4 ((((3'-DEOXY-3'-THYMIDINYL)-AMINO)CARBONYL)METHYL) HETSYN ACP ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE FORMUL 2 AD4 C47 H75 N O14 FORMUL 3 ACP C11 H18 N5 O12 P3 FORMUL 4 MG 2(MG 2+) FORMUL 6 NA NA 1+ HELIX 1 1 SER A 8 GLY A 17 1 10 HELIX 2 2 THR A 25 GLY A 37 1 13 HELIX 3 3 SER A 48 GLN A 56 1 9 HELIX 4 4 ASP A 59 ALA A 76 1 18 HELIX 5 5 ILE A 85 PHE A 88 5 4 HELIX 6 6 VAL A 89 ASN A 111 1 23 HELIX 7 7 ALA A 115 TYR A 122 5 8 HELIX 8 8 ARG A 143 ILE A 145 5 3 HELIX 9 9 GLN A 177 THR A 181 5 5 HELIX 10 10 VAL A 200 LYS A 204 5 5 HELIX 11 11 THR A 226 THR A 230 5 5 HELIX 12 12 ILE A 232 THR A 242 1 11 HELIX 13 13 THR A 247 ASN A 275 1 29 HELIX 14 14 ILE A 276 ASN A 280 5 5 HELIX 15 15 TRP A 288 ARG A 290 5 3 HELIX 16 16 GLY A 291 VAL A 304 1 14 HELIX 17 17 GLY A 310 LYS A 329 1 20 HELIX 18 18 PRO A 337 CYS A 344 1 8 HELIX 19 19 PHE A 407 CYS A 420 1 14 HELIX 20 20 GLU A 439 MET A 452 1 14 HELIX 21 21 SER A 463 ALA A 468 1 6 HELIX 22 22 ASN A 469 GLN A 477 1 9 HELIX 23 23 ALA A 517 ARG A 524 1 8 HELIX 24 24 THR A 538 GLY A 555 1 18 HELIX 25 25 LYS A 572 MET A 576 5 5 HELIX 26 26 ASP A 580 MET A 585 5 6 HELIX 27 27 MET A 585 THR A 589 5 5 HELIX 28 28 LYS A 605 GLY A 618 1 14 HELIX 29 29 ASN A 628 GLY A 640 1 13 HELIX 30 30 THR A 654 LEU A 661 1 8 HELIX 31 31 PRO A 662 ALA A 673 1 12 HELIX 32 32 GLU A 680 TYR A 694 1 15 HELIX 33 33 ASP A 707 ALA A 714 1 8 HELIX 34 34 THR A 724 THR A 729 1 6 HELIX 35 35 ASN A 739 LEU A 781 1 43 HELIX 36 36 ILE A 788 VAL A 798 1 11 HELIX 37 37 ASP A 800 GLY A 808 1 9 HELIX 38 38 ASP A 815 ARG A 819 5 5 HELIX 39 39 SER A 830 TYR A 858 1 29 HELIX 40 40 ASP A 887 GLU A 892 5 6 HELIX 41 41 ALA A 893 ALA A 912 1 20 HELIX 42 42 PRO A 926 VAL A 929 5 4 HELIX 43 43 ASN A 930 PHE A 945 1 16 HELIX 44 44 PHE A 945 VAL A 950 1 6 HELIX 45 45 GLN A 966 LYS A 972 1 7 HELIX 46 46 LEU A 975 LYS A 985 1 11 HELIX 47 47 PHE A 986 ARG A 989 5 4 SHEET 1 AA 6 GLN A 138 LYS A 141 0 SHEET 2 AA 6 MET A 126 TYR A 130 -1 O GLY A 127 N ILE A 140 SHEET 3 AA 6 ILE A 150 ALA A 154 -1 O ILE A 150 N TYR A 130 SHEET 4 AA 6 LYS A 218 THR A 225 -1 O ALA A 219 N VAL A 153 SHEET 5 AA 6 ASP A 162 ILE A 168 -1 O ASP A 162 N ALA A 224 SHEET 6 AA 6 MET A 207 LEU A 208 -1 O LEU A 208 N ILE A 163 SHEET 1 AB 3 VAL A 187 ILE A 188 0 SHEET 2 AB 3 ARG A 174 ASP A 176 -1 O VAL A 175 N VAL A 187 SHEET 3 AB 3 ASN A 213 ALA A 216 -1 O ASN A 213 N ASP A 176 SHEET 1 AC 7 ALA A 331 VAL A 333 0 SHEET 2 AC 7 MET A 733 LEU A 735 -1 O VAL A 734 N ILE A 332 SHEET 3 AC 7 ILE A 716 MET A 720 1 O ALA A 719 N LEU A 735 SHEET 4 AC 7 THR A 698 GLY A 702 1 O THR A 698 N ILE A 716 SHEET 5 AC 7 VAL A 347 ASP A 351 1 O VAL A 347 N ALA A 699 SHEET 6 AC 7 ARG A 620 THR A 625 1 O ARG A 620 N ILE A 348 SHEET 7 AC 7 CYS A 675 ALA A 677 1 O PHE A 676 N THR A 625 SHEET 1 AD 4 CYS A 377 GLU A 381 0 SHEET 2 AD 4 SER A 362 VAL A 372 -1 O ILE A 368 N ASN A 380 SHEET 3 AD 4 LEU A 591 LEU A 600 -1 O VAL A 596 N PHE A 367 SHEET 4 AD 4 CYS A 525 VAL A 528 1 N ASN A 526 O LEU A 591 SHEET 1 AE 7 CYS A 377 GLU A 381 0 SHEET 2 AE 7 SER A 362 VAL A 372 -1 O ILE A 368 N ASN A 380 SHEET 3 AE 7 LEU A 591 LEU A 600 -1 O VAL A 596 N PHE A 367 SHEET 4 AE 7 ARG A 560 ARG A 567 -1 O ARG A 560 N MET A 599 SHEET 5 AE 7 LYS A 511 GLY A 516 -1 O MET A 512 N ARG A 567 SHEET 6 AE 7 SER A 493 SER A 499 -1 O MET A 494 N LYS A 515 SHEET 7 AE 7 LYS A 480 SER A 488 -1 O LYS A 480 N SER A 499 SHEET 1 AF 3 SER A 383 ILE A 384 0 SHEET 2 AF 3 VAL A 395 LYS A 397 -1 O LEU A 396 N SER A 383 SHEET 3 AF 3 LYS A 400 PRO A 401 -1 O LYS A 400 N LYS A 397 SHEET 1 AG 2 LEU A 425 PHE A 427 0 SHEET 2 AG 2 TYR A 434 LYS A 436 -1 O GLU A 435 N ASP A 426 SSBOND 1 CYS A 876 CYS A 888 1555 1555 2.03 LINK OE2 GLU A 439 MG MG A1997 1555 1555 2.45 LINK O2B ACP A1996 MG MG A1997 1555 1555 2.61 SITE 1 AC1 3 GLU A 439 THR A 441 ACP A1996 SITE 1 AC2 2 ASP A 703 ASP A 707 SITE 1 AC3 4 GLN A 244 LYS A 712 ALA A 714 GLU A 732 SITE 1 AC4 20 LEU A 61 VAL A 62 ASN A 101 LEU A 253 SITE 2 AC4 20 GLU A 255 PHE A 256 GLN A 259 LEU A 260 SITE 3 AC4 20 VAL A 263 ALA A 306 ILE A 307 PRO A 308 SITE 4 AC4 20 LEU A 311 PRO A 312 ILE A 765 VAL A 772 SITE 5 AC4 20 LEU A 828 ILE A 829 PHE A 834 TYR A 837 SITE 1 AC5 9 THR A 353 THR A 441 GLU A 442 PHE A 487 SITE 2 AC5 9 LYS A 515 ALA A 517 ARG A 560 GLY A 626 SITE 3 AC5 9 MG A1997 CRYST1 71.739 71.739 593.656 90.00 90.00 90.00 P 41 21 2 8 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 0.013939 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013939 0.000000 0.00000 SCALE3 0.000000 0.000000 0.001684 0.00000