HEADER OXIDOREDUCTASE 27-JAN-11 2L90 TITLE SOLUTION STRUCTURE OF MURINE MYRISTOYLATED MSRA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDE METHIONINE SULFOXIDE REDUCTASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 22-233; COMPND 5 SYNONYM: PEPTIDE-METHIONINE (S)-S-OXIDE REDUCTASE, PEPTIDE MET(O) COMPND 6 REDUCTASE, PROTEIN-METHIONINE-S-OXIDE REDUCTASE, PMSR; COMPND 7 EC: 1.8.4.11; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: MSRA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET17B KEYWDS OXIDOREDUCTASE EXPDTA SOLUTION NMR NUMMDL 21 MDLTYP MINIMIZED AVERAGE AUTHOR J.M.GRUSCHUS,J.LIM,G.PISZCZEK,R.L.LEVINE,N.TJANDRA REVDAT 4 06-NOV-24 2L90 1 REMARK LINK REVDAT 3 01-AUG-12 2L90 1 JRNL REVDAT 2 15-FEB-12 2L90 1 ATOM DBREF REVDAT 1 11-JAN-12 2L90 0 JRNL AUTH J.C.LIM,J.M.GRUSCHUS,B.GHESQUIERE,G.KIM,G.PISZCZEK, JRNL AUTH 2 N.TJANDRA,R.L.LEVINE JRNL TITL CHARACTERIZATION AND SOLUTION STRUCTURE OF MOUSE JRNL TITL 2 MYRISTOYLATED METHIONINE SULFOXIDE REDUCTASE A. JRNL REF J.BIOL.CHEM. V. 287 25589 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22661718 JRNL DOI 10.1074/JBC.M112.368936 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.C.LIM,J.M.GRUSCHUS,G.KIM,B.S.BERLETT,N.TJANDRA,R.L.LEVINE REMARK 1 TITL A LOW PKA CYSTEINE AT THE ACTIVE SITE OF MOUSE METHIONINE REMARK 1 TITL 2 SULFOXIDE REDUCTASE A. REMARK 1 REF J.BIOL.CHEM. V. 287 25596 2012 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 22661719 REMARK 1 DOI 10.1074/JBC.M112.369116 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE AUTHORS STATE THAT THE DISTORTION REMARK 3 AROUND CYS206 CA IN MODEL 1 IS A MANIFESTATION OF THE AVERAGING, REMARK 3 REFLECTING THAT LOCAL FLEXIBILITY OFTEN CANNOT BE ACCURATELY REMARK 3 REPRESENTED AS A SINGLE STRUCTURE. REMARK 4 REMARK 4 2L90 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-FEB-11. REMARK 100 THE DEPOSITION ID IS D_1000102107. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.3 MM [U-98% 13C; U-98% 15N] REMARK 210 MSRA, 5 MM DTT, 50 MM TRIS, 5 MM REMARK 210 EDTA, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 2D 1H-15N HSQC; REMARK 210 2D 1H-13C HSQC ALIPHATIC; 3D REMARK 210 CBCA(CO)NH; 3D HNCACB 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 : X-PLOR NIH REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 21 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (RES=RESIDUE NAME; REMARK 470 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 470 MODELS 1-21 REMARK 470 RES CSSEQI ATOMS REMARK 470 LYS A 233 CA C O CB CG CD CE REMARK 470 LYS A 233 NZ 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 HH21 ARG A 156 OD1 ASP A 192 1.54 REMARK 500 HZ2 LYS A 133 OE1 GLU A 137 1.56 REMARK 500 HE ARG A 156 OD2 ASP A 192 1.56 REMARK 500 OE2 GLU A 57 HH12 ARG A 118 1.56 REMARK 500 O ASP A 140 HE22 GLN A 147 1.57 REMARK 500 OE2 GLU A 77 HE22 GLN A 208 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 1 HIS A 139 CG - ND1 - CE1 ANGL. DEV. = -8.0 DEGREES REMARK 500 1 CYS A 227 CB - CA - C ANGL. DEV. = 13.1 DEGREES REMARK 500 1 CYS A 227 N - CA - CB ANGL. DEV. = 9.2 DEGREES REMARK 500 4 TYR A 201 CB - CG - CD2 ANGL. DEV. = -4.8 DEGREES REMARK 500 14 TYR A 205 CB - CG - CD1 ANGL. DEV. = -4.5 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 VAL A 28 51.06 -91.78 REMARK 500 1 THR A 45 92.23 -55.24 REMARK 500 1 ASN A 53 -98.36 -81.22 REMARK 500 1 MET A 70 -121.96 -128.30 REMARK 500 1 GLU A 109 -23.21 79.15 REMARK 500 1 TYR A 155 66.85 -111.16 REMARK 500 1 SER A 163 -167.56 -171.60 REMARK 500 1 GLN A 207 -130.75 -94.91 REMARK 500 1 GLN A 208 14.40 -68.79 REMARK 500 1 ASN A 213 77.65 -117.70 REMARK 500 1 ASP A 215 -38.88 -39.53 REMARK 500 1 TYR A 217 109.84 -36.97 REMARK 500 1 CYS A 218 -65.51 81.92 REMARK 500 1 THR A 223 -35.16 0.56 REMARK 500 1 VAL A 225 71.04 -49.28 REMARK 500 1 CYS A 227 -109.78 98.07 REMARK 500 1 ALA A 230 -14.23 85.59 REMARK 500 1 LYS A 232 -113.28 72.88 REMARK 500 2 ASP A 23 -89.14 36.00 REMARK 500 2 ALA A 25 -7.68 -49.95 REMARK 500 2 SER A 26 -9.26 -46.37 REMARK 500 2 LYS A 27 54.88 -114.91 REMARK 500 2 VAL A 28 21.67 -155.55 REMARK 500 2 ILE A 29 177.06 -41.34 REMARK 500 2 ALA A 34 148.99 -30.57 REMARK 500 2 LEU A 35 161.39 -37.78 REMARK 500 2 GLU A 40 74.24 -118.05 REMARK 500 2 PRO A 43 -165.98 -48.34 REMARK 500 2 THR A 45 83.36 -33.90 REMARK 500 2 HIS A 48 141.21 -30.18 REMARK 500 2 VAL A 50 -63.68 -95.43 REMARK 500 2 ASN A 53 -114.87 -82.75 REMARK 500 2 GLU A 57 153.77 -34.08 REMARK 500 2 PHE A 59 66.68 -117.53 REMARK 500 2 PRO A 60 -176.42 -67.28 REMARK 500 2 MET A 70 -94.29 -126.25 REMARK 500 2 CYS A 72 149.30 113.05 REMARK 500 2 TRP A 74 -65.98 -101.56 REMARK 500 2 ALA A 94 -179.62 -179.76 REMARK 500 2 ARG A 99 -80.35 -55.17 REMARK 500 2 SER A 108 5.50 -60.52 REMARK 500 2 GLU A 109 -0.04 54.82 REMARK 500 2 ASP A 140 73.02 -105.21 REMARK 500 2 PRO A 141 23.80 -59.53 REMARK 500 2 MET A 145 41.78 -66.05 REMARK 500 2 ARG A 146 145.49 178.37 REMARK 500 2 SER A 163 -162.38 178.48 REMARK 500 2 ASN A 185 61.66 71.86 REMARK 500 2 PRO A 188 105.82 -58.51 REMARK 500 2 ILE A 189 177.15 -53.24 REMARK 500 REMARK 500 THIS ENTRY HAS 817 RAMACHANDRAN OUTLIERS. 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 CYS A 218 GLY A 219 1 -147.75 REMARK 500 GLY A 224 VAL A 225 1 141.67 REMARK 500 VAL A 225 SER A 226 1 127.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MYR A 21 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 17432 RELATED DB: BMRB DBREF 2L90 A 22 233 UNP Q9D6Y7 MSRA_MOUSE 22 233 SEQRES 1 A 212 GLY ASP SER ALA SER LYS VAL ILE SER ALA GLU GLU ALA SEQRES 2 A 212 LEU PRO GLY ARG THR GLU PRO ILE PRO VAL THR ALA LYS SEQRES 3 A 212 HIS HIS VAL SER GLY ASN ARG THR VAL GLU PRO PHE PRO SEQRES 4 A 212 GLU GLY THR GLN MET ALA VAL PHE GLY MET GLY CYS PHE SEQRES 5 A 212 TRP GLY ALA GLU ARG LYS PHE TRP VAL LEU LYS GLY VAL SEQRES 6 A 212 TYR SER THR GLN VAL GLY PHE ALA GLY GLY HIS THR ARG SEQRES 7 A 212 ASN PRO THR TYR LYS GLU VAL CYS SER GLU LYS THR GLY SEQRES 8 A 212 HIS ALA GLU VAL VAL ARG VAL VAL TYR ARG PRO GLU HIS SEQRES 9 A 212 ILE SER PHE GLU GLU LEU LEU LYS VAL PHE TRP GLU ASN SEQRES 10 A 212 HIS ASP PRO THR GLN GLY MET ARG GLN GLY ASN ASP PHE SEQRES 11 A 212 GLY THR GLN TYR ARG SER ALA VAL TYR PRO THR SER ALA SEQRES 12 A 212 VAL GLN MET GLU ALA ALA LEU ARG SER LYS GLU GLU TYR SEQRES 13 A 212 GLN LYS VAL LEU SER LYS HIS ASN PHE GLY PRO ILE THR SEQRES 14 A 212 THR ASP ILE ARG GLU GLY GLN VAL PHE TYR TYR ALA GLU SEQRES 15 A 212 ASP TYR HIS GLN GLN TYR LEU SER LYS ASN PRO ASP GLY SEQRES 16 A 212 TYR CYS GLY LEU GLY GLY THR GLY VAL SER CYS PRO MET SEQRES 17 A 212 ALA ILE LYS LYS HET MYR A 21 42 HETNAM MYR MYRISTIC ACID FORMUL 2 MYR C14 H28 O2 HELIX 1 1 ASP A 23 LYS A 27 5 5 HELIX 2 2 CYS A 72 VAL A 82 1 11 HELIX 3 3 THR A 102 CYS A 107 1 6 HELIX 4 4 SER A 127 ASN A 138 1 12 HELIX 5 5 SER A 163 LYS A 183 1 21 HELIX 6 6 GLU A 203 GLN A 207 5 5 HELIX 7 7 GLN A 208 ASN A 213 1 6 SHEET 1 A 6 ASP A 192 ILE A 193 0 SHEET 2 A 6 ALA A 158 TYR A 160 1 N VAL A 159 O ASP A 192 SHEET 3 A 6 GLN A 64 GLY A 69 -1 N GLY A 69 O ALA A 158 SHEET 4 A 6 ALA A 114 TYR A 121 -1 O VAL A 117 N PHE A 68 SHEET 5 A 6 VAL A 86 ALA A 94 -1 N ALA A 94 O ALA A 114 SHEET 6 A 6 TYR A 200 TYR A 201 -1 O TYR A 200 N PHE A 93 SHEET 1 B 2 ARG A 146 GLN A 147 0 SHEET 2 B 2 ASP A 150 PHE A 151 -1 O ASP A 150 N GLN A 147 LINK C1 MYR A 21 N GLY A 22 1555 1555 1.35 CISPEP 1 GLU A 57 PRO A 58 1 2.26 CISPEP 2 SER A 226 CYS A 227 1 -12.63 CISPEP 3 ILE A 231 LYS A 232 1 -9.56 CISPEP 4 GLU A 57 PRO A 58 2 0.46 CISPEP 5 GLU A 57 PRO A 58 3 -0.05 CISPEP 6 GLU A 57 PRO A 58 4 -0.52 CISPEP 7 GLU A 57 PRO A 58 5 -0.25 CISPEP 8 GLU A 57 PRO A 58 6 0.07 CISPEP 9 GLU A 57 PRO A 58 7 -0.01 CISPEP 10 GLU A 57 PRO A 58 8 0.03 CISPEP 11 GLU A 57 PRO A 58 9 -0.26 CISPEP 12 GLU A 57 PRO A 58 10 0.09 CISPEP 13 GLU A 57 PRO A 58 11 -0.50 CISPEP 14 GLU A 57 PRO A 58 12 -0.54 CISPEP 15 GLU A 57 PRO A 58 13 0.32 CISPEP 16 GLU A 57 PRO A 58 14 -0.07 CISPEP 17 GLU A 57 PRO A 58 15 0.07 CISPEP 18 GLU A 57 PRO A 58 16 -0.26 CISPEP 19 GLU A 57 PRO A 58 17 -0.71 CISPEP 20 GLU A 57 PRO A 58 18 -0.07 CISPEP 21 GLU A 57 PRO A 58 19 -0.35 CISPEP 22 GLU A 57 PRO A 58 20 0.52 CISPEP 23 GLU A 57 PRO A 58 21 0.08 SITE 1 AC1 5 GLY A 22 SER A 24 LYS A 27 GLY A 112 SITE 2 AC1 5 ARG A 156 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