HEADER METAL TRANSPORT 13-AUG-13 2MC2 TITLE X-RAY CRYSTALLOGRAPHY-SOLUTION NMR HYBRID STRUCTURE OF MOUSE RYR2 TITLE 2 DOMAIN A COMPND MOL_ID: 1; COMPND 2 MOLECULE: RYANODINE RECEPTOR 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: DOMAIN A (UNP RESIDUES 10-224); COMPND 5 SYNONYM: RYR-2, RYR2, CARDIAC MUSCLE RYANODINE RECEPTOR, CARDIAC COMPND 6 MUSCLE RYANODINE RECEPTOR-CALCIUM RELEASE CHANNEL, TYPE 2 RYANODINE COMPND 7 RECEPTOR; 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: RYR2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET32A KEYWDS RYANODINE RECEPTOR, TYPE II, ALPHA2 HELIX, METAL TRANSPORT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR F.AMADOR,P.STATHOPULOS,G.SEABROOK,M.IKURA REVDAT 3 14-JUN-23 2MC2 1 REMARK SEQADV REVDAT 2 23-OCT-13 2MC2 1 JRNL REVDAT 1 11-SEP-13 2MC2 0 JRNL AUTH F.J.AMADOR,L.KIMLICKA,P.B.STATHOPULOS,G.M.GASMI-SEABROOK, JRNL AUTH 2 D.H.MACLENNAN,F.VAN PETEGEM,M.IKURA JRNL TITL TYPE 2 RYANODINE RECEPTOR DOMAIN A CONTAINS A UNIQUE AND JRNL TITL 2 DYNAMIC ALPHA-HELIX THAT TRANSITIONS TO A BETA-STRAND IN A JRNL TITL 3 MUTANT LINKED WITH A HERITABLE CARDIOMYOPATHY. JRNL REF J.MOL.BIOL. V. 425 4034 2013 JRNL REFN ISSN 0022-2836 JRNL PMID 23978697 JRNL DOI 10.1016/J.JMB.2013.08.015 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE, CNS REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), BRUNGER, ADAMS, CLORE, GROS, NILGES AND REMARK 3 READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE RECOORD SCRIPTS [PROTEINS. 2005 JUN REMARK 3 1;59(4):662-72] WERE EMPLOYED TO REANNEAL AND REFINE THE REMARK 3 STRUCTURE WITH THE ADDITION OF THE NEW NMR RESTRAINTS. PDB ENTRY REMARK 3 3IM5 WAS USED AS THE STARTING STRUCTURE FOR REFINEMENT. REMARK 4 REMARK 4 2MC2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-AUG-13. REMARK 100 THE DEPOSITION ID IS D_1000103459. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 288 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 0.328 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.4 MM [U-13C; U-15N; U-2H] REMARK 210 RYR2, 20 MM SODIUM PHOSPHATE, REMARK 210 300 MM SODIUM CHLORIDE, 2 MM REMARK 210 TCEP, 5 MM DTT, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D HNCO; 3D HN(CO)CA 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 : XEASY, TALOS, CNS 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 : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: TROSY PULSE SEQUENCES WERE EMPLOYED. 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 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLY A 6 REMARK 465 SER A 7 REMARK 465 GLY A 8 REMARK 465 SER A 9 REMARK 465 GLU A 10 REMARK 465 ILE A 11 REMARK 465 SER A 218 REMARK 465 SER A 219 REMARK 465 GLY A 220 REMARK 465 SER A 221 REMARK 465 GLU A 222 REMARK 465 ALA A 223 REMARK 465 ALA A 224 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: 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 ASP A 17 -2.84 70.92 REMARK 500 1 ILE A 28 145.32 -171.49 REMARK 500 1 SER A 53 59.11 18.10 REMARK 500 1 SER A 55 67.95 -164.69 REMARK 500 1 LYS A 56 39.98 -149.10 REMARK 500 1 ASN A 57 123.37 -172.10 REMARK 500 1 VAL A 58 166.01 60.88 REMARK 500 1 SER A 72 86.51 -156.89 REMARK 500 1 HIS A 110 70.32 55.99 REMARK 500 1 HIS A 123 106.55 -59.47 REMARK 500 1 SER A 138 -30.48 -136.36 REMARK 500 1 LEU A 143 -74.19 -59.27 REMARK 500 1 ASN A 198 -80.97 4.28 REMARK 500 2 ASP A 17 -3.29 70.99 REMARK 500 2 ILE A 28 144.50 -172.75 REMARK 500 2 SER A 53 60.30 18.19 REMARK 500 2 SER A 55 69.47 -166.28 REMARK 500 2 LYS A 56 31.24 -141.67 REMARK 500 2 ASN A 57 129.57 -170.72 REMARK 500 2 VAL A 58 166.16 61.27 REMARK 500 2 SER A 72 83.33 -156.10 REMARK 500 2 GLU A 87 -88.64 -71.57 REMARK 500 2 LYS A 88 -63.34 -148.66 REMARK 500 2 SER A 89 176.32 61.07 REMARK 500 2 GLN A 92 -82.75 62.49 REMARK 500 2 VAL A 93 119.01 64.00 REMARK 500 2 HIS A 123 106.48 -59.98 REMARK 500 2 ARG A 137 -78.82 -172.09 REMARK 500 2 SER A 138 -30.20 -158.85 REMARK 500 2 LYS A 142 -89.45 -112.78 REMARK 500 2 LEU A 143 -89.46 55.32 REMARK 500 2 GLU A 151 -72.91 -68.10 REMARK 500 2 ASN A 198 -78.65 1.11 REMARK 500 2 SER A 199 10.96 -147.09 REMARK 500 3 ASP A 17 -5.05 71.39 REMARK 500 3 ARG A 45 29.55 43.96 REMARK 500 3 SER A 53 59.20 18.30 REMARK 500 3 SER A 55 66.04 -168.74 REMARK 500 3 ASN A 57 118.45 65.98 REMARK 500 3 VAL A 58 165.62 61.20 REMARK 500 3 SER A 72 82.59 -157.21 REMARK 500 3 GLU A 87 -166.87 -129.77 REMARK 500 3 GLU A 90 115.48 -168.47 REMARK 500 3 ASP A 94 92.37 -62.32 REMARK 500 3 HIS A 123 105.67 -59.29 REMARK 500 3 ARG A 137 -33.55 -166.24 REMARK 500 3 THR A 140 136.56 65.85 REMARK 500 3 ASP A 141 -86.58 -137.84 REMARK 500 3 LYS A 142 -170.30 -178.23 REMARK 500 3 LEU A 143 -108.21 60.09 REMARK 500 REMARK 500 THIS ENTRY HAS 344 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3IM5 RELATED DB: PDB REMARK 900 RYR2A CRYSTAL STRUCTURE REMARK 900 RELATED ID: 4KEI RELATED DB: PDB REMARK 900 P164S RYR2A CRYSTAL STRUCTURE REMARK 900 RELATED ID: 4KEJ RELATED DB: PDB REMARK 900 R169Q RYR2A CRYSTAL STRUCTURE REMARK 900 RELATED ID: 4KEK RELATED DB: PDB REMARK 900 R176Q RYR2A CRYSTAL STRUCTURE REMARK 900 RELATED ID: 3QR5 RELATED DB: PDB REMARK 900 DELTA EXON 3 RYR2A CRYSTAL STRUCTURE REMARK 900 RELATED ID: 19424 RELATED DB: BMRB REMARK 900 DELTA EXON 3 RYR2A BACKBONE CHEMICAL SHIFT ASSIGNMENTS REMARK 900 RELATED ID: 19425 RELATED DB: BMRB DBREF 2MC2 A 10 224 UNP E9Q401 RYR2_MOUSE 10 224 SEQADV 2MC2 GLY A 6 UNP E9Q401 EXPRESSION TAG SEQADV 2MC2 SER A 7 UNP E9Q401 EXPRESSION TAG SEQADV 2MC2 GLY A 8 UNP E9Q401 EXPRESSION TAG SEQADV 2MC2 SER A 9 UNP E9Q401 EXPRESSION TAG SEQRES 1 A 219 GLY SER GLY SER GLU ILE GLN PHE LEU ARG THR ASP ASP SEQRES 2 A 219 GLU VAL VAL LEU GLN CYS THR ALA THR ILE HIS LYS GLU SEQRES 3 A 219 GLN GLN LYS LEU CYS LEU ALA ALA GLU GLY PHE GLY ASN SEQRES 4 A 219 ARG LEU CYS PHE LEU GLU SER THR SER ASN SER LYS ASN SEQRES 5 A 219 VAL PRO PRO ASP LEU SER ILE CYS THR PHE VAL LEU GLU SEQRES 6 A 219 GLN SER LEU SER VAL ARG ALA LEU GLN GLU MET LEU ALA SEQRES 7 A 219 ASN THR VAL GLU LYS SER GLU GLY GLN VAL ASP VAL GLU SEQRES 8 A 219 LYS TRP LYS PHE MET MET LYS THR ALA GLN GLY GLY GLY SEQRES 9 A 219 HIS ARG THR LEU LEU TYR GLY HIS ALA ILE LEU LEU ARG SEQRES 10 A 219 HIS SER TYR SER GLY MET TYR LEU CYS CYS LEU SER THR SEQRES 11 A 219 SER ARG SER SER THR ASP LYS LEU ALA PHE ASP VAL GLY SEQRES 12 A 219 LEU GLN GLU ASP THR THR GLY GLU ALA CYS TRP TRP THR SEQRES 13 A 219 ILE HIS PRO ALA SER LYS GLN ARG SER GLU GLY GLU LYS SEQRES 14 A 219 VAL ARG VAL GLY ASP ASP LEU ILE LEU VAL SER VAL SER SEQRES 15 A 219 SER GLU ARG TYR LEU HIS LEU SER TYR GLY ASN SER SER SEQRES 16 A 219 TRP HIS VAL ASP ALA ALA PHE GLN GLN THR LEU TRP SER SEQRES 17 A 219 VAL ALA PRO ILE SER SER GLY SER GLU ALA ALA HELIX 1 1 LEU A 62 CYS A 65 5 4 HELIX 2 2 VAL A 75 THR A 85 1 11 HELIX 3 3 LYS A 97 GLY A 108 1 12 SHEET 1 A 9 PHE A 48 SER A 51 0 SHEET 2 A 9 GLU A 31 ALA A 38 -1 N ALA A 38 O PHE A 48 SHEET 3 A 9 GLU A 19 ILE A 28 -1 N LEU A 22 O LEU A 37 SHEET 4 A 9 TRP A 212 PRO A 216 -1 O SER A 213 N GLN A 23 SHEET 5 A 9 ASP A 180 SER A 185 -1 N LEU A 181 O TRP A 212 SHEET 6 A 9 TRP A 159 PRO A 164 -1 N THR A 161 O VAL A 184 SHEET 7 A 9 HIS A 117 HIS A 123 -1 N ILE A 119 O TRP A 160 SHEET 8 A 9 PHE A 67 SER A 74 -1 N LEU A 73 O ALA A 118 SHEET 9 A 9 GLU A 19 ILE A 28 -1 N VAL A 20 O PHE A 67 SHEET 1 B 4 TYR A 129 LEU A 133 0 SHEET 2 B 4 PHE A 145 GLN A 150 -1 O GLY A 148 N CYS A 131 SHEET 3 B 4 TRP A 201 ALA A 206 -1 O ALA A 205 N PHE A 145 SHEET 4 B 4 TYR A 191 TYR A 196 -1 N SER A 195 O HIS A 202 SSBOND 1 CYS A 36 CYS A 65 1555 1555 2.03 CISPEP 1 SER A 55 LYS A 56 1 0.21 CISPEP 2 GLU A 96 LYS A 97 1 -0.40 CISPEP 3 GLY A 109 HIS A 110 1 0.06 CISPEP 4 SER A 55 LYS A 56 2 0.17 CISPEP 5 GLU A 96 LYS A 97 2 -2.96 CISPEP 6 GLY A 109 HIS A 110 2 0.08 CISPEP 7 SER A 55 LYS A 56 3 0.11 CISPEP 8 GLU A 96 LYS A 97 3 -3.49 CISPEP 9 GLY A 109 HIS A 110 3 0.21 CISPEP 10 SER A 55 LYS A 56 4 -0.26 CISPEP 11 GLU A 96 LYS A 97 4 -3.51 CISPEP 12 GLY A 109 HIS A 110 4 -0.10 CISPEP 13 SER A 55 LYS A 56 5 0.30 CISPEP 14 GLU A 96 LYS A 97 5 -3.06 CISPEP 15 GLY A 109 HIS A 110 5 -0.10 CISPEP 16 SER A 55 LYS A 56 6 -0.06 CISPEP 17 GLU A 96 LYS A 97 6 -2.73 CISPEP 18 GLY A 109 HIS A 110 6 0.08 CISPEP 19 SER A 55 LYS A 56 7 -0.09 CISPEP 20 GLU A 96 LYS A 97 7 -4.73 CISPEP 21 GLY A 109 HIS A 110 7 -0.04 CISPEP 22 SER A 55 LYS A 56 8 -0.08 CISPEP 23 GLU A 96 LYS A 97 8 -2.69 CISPEP 24 GLY A 109 HIS A 110 8 0.01 CISPEP 25 SER A 55 LYS A 56 9 0.01 CISPEP 26 GLU A 96 LYS A 97 9 -5.80 CISPEP 27 GLY A 109 HIS A 110 9 -0.09 CISPEP 28 SER A 55 LYS A 56 10 -0.19 CISPEP 29 GLU A 96 LYS A 97 10 -2.72 CISPEP 30 GLY A 109 HIS A 110 10 -0.08 CISPEP 31 SER A 55 LYS A 56 11 0.02 CISPEP 32 GLU A 96 LYS A 97 11 -3.17 CISPEP 33 GLY A 109 HIS A 110 11 -0.02 CISPEP 34 SER A 55 LYS A 56 12 -0.07 CISPEP 35 GLU A 96 LYS A 97 12 -5.25 CISPEP 36 GLY A 109 HIS A 110 12 0.04 CISPEP 37 SER A 55 LYS A 56 13 -0.23 CISPEP 38 GLU A 96 LYS A 97 13 -2.72 CISPEP 39 GLY A 109 HIS A 110 13 -0.07 CISPEP 40 SER A 55 LYS A 56 14 -0.16 CISPEP 41 GLU A 96 LYS A 97 14 -2.90 CISPEP 42 GLY A 109 HIS A 110 14 0.10 CISPEP 43 SER A 55 LYS A 56 15 -0.07 CISPEP 44 GLU A 96 LYS A 97 15 -3.02 CISPEP 45 GLY A 109 HIS A 110 15 0.06 CISPEP 46 SER A 55 LYS A 56 16 0.09 CISPEP 47 GLU A 96 LYS A 97 16 -2.53 CISPEP 48 GLY A 109 HIS A 110 16 0.04 CISPEP 49 SER A 55 LYS A 56 17 -0.03 CISPEP 50 GLU A 96 LYS A 97 17 -3.53 CISPEP 51 GLY A 109 HIS A 110 17 0.09 CISPEP 52 SER A 55 LYS A 56 18 -0.06 CISPEP 53 GLU A 96 LYS A 97 18 -2.66 CISPEP 54 GLY A 109 HIS A 110 18 -0.19 CISPEP 55 SER A 55 LYS A 56 19 -0.31 CISPEP 56 GLU A 96 LYS A 97 19 -2.75 CISPEP 57 GLY A 109 HIS A 110 19 -0.16 CISPEP 58 SER A 55 LYS A 56 20 -0.04 CISPEP 59 GLU A 96 LYS A 97 20 -3.09 CISPEP 60 GLY A 109 HIS A 110 20 -0.05 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