HEADER CONTRACTILE PROTEIN 27-SEP-21 7SC2 TITLE CRYSTAL STRUCTURE OF THE N-DOMAIN OF CARDIAC MUSCLE TROPONIN C TITLE 2 TETHERED TO THE SWITCH REGION OF CARDIAC MUSCLE TROPONIN I TITLE 3 (TETRAGONAL FORM) COMPND MOL_ID: 1; COMPND 2 MOLECULE: TROPONIN C, SLOW SKELETAL AND CARDIAC MUSCLES,TROPONIN I, COMPND 3 CARDIAC MUSCLE CHIMERA; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: TN-C,CARDIAC TROPONIN I; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TNNC1, TNNC, TNNI3, TNNC1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS CALCIUM SENSITIZER, CONTRACTION REGULATION, CONTRACTILE PROTEIN, KEYWDS 2 CARDIAC TROPONIN, MUSCLE REGULATION, CALCIUM-BINDING, EF-HAND EXPDTA X-RAY DIFFRACTION AUTHOR J.S.SACK REVDAT 3 12-JAN-22 7SC2 1 JRNL REVDAT 2 05-JAN-22 7SC2 1 JRNL REVDAT 1 01-DEC-21 7SC2 0 JRNL AUTH C.YAN,J.S.SACK JRNL TITL X-RAY STRUCTURE OF A HUMAN CARDIAC MUSCLE TROPONIN JRNL TITL 2 C/TROPONIN I CHIMERA IN TWO CRYSTAL FORMS. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 78 17 2022 JRNL REFN ESSN 2053-230X JRNL PMID 34981771 JRNL DOI 10.1107/S2053230X21012395 REMARK 2 REMARK 2 RESOLUTION. 1.81 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.11.7 (6-FEB-2020) REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.81 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.02 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 78.5 REMARK 3 NUMBER OF REFLECTIONS : 8344 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 + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.222 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 422 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.81 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 1.94 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 20.92 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : NULL REMARK 3 BIN R VALUE (WORKING + TEST SET) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 384 REMARK 3 BIN R VALUE (WORKING SET) : 0.2337 REMARK 3 BIN FREE R VALUE : 0.2069 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 3.52 REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 793 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 28 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 48.41 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.56 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.31380 REMARK 3 B22 (A**2) : -0.31380 REMARK 3 B33 (A**2) : 0.62760 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) : 0.330 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.189 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.153 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.177 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.148 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.942 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 810 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 1090 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 281 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 139 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 810 ; 10.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 113 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 712 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 0.83 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.32 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 15.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7SC2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-SEP-21. REMARK 100 THE DEPOSITION ID IS D_1000259430. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-OCT-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8344 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.810 REMARK 200 RESOLUTION RANGE LOW (A) : 39.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 78.5 REMARK 200 DATA REDUNDANCY : 12.30 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.81 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 21.2 REMARK 200 DATA REDUNDANCY IN SHELL : 12.50 REMARK 200 R MERGE FOR SHELL (I) : 2.34700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 22% PEG 4000, 0.1M NA ACETATE PH 4.5, REMARK 280 0.2M NAH4-ACETATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 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 64.46600 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 20.46750 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 20.46750 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 96.69900 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 20.46750 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 20.46750 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 32.23300 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 20.46750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 20.46750 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 96.69900 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 20.46750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 20.46750 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 32.23300 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 64.46600 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: PISA 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. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ASP A 2 REMARK 465 ASP A 132 REMARK 465 ASP A 133 REMARK 465 SER A 134 REMARK 465 LYS A 135 REMARK 465 ALA A 162 REMARK 465 LYS A 163 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASP A 3 CG OD1 OD2 REMARK 470 TYR A 5 CE1 CE2 CZ OH REMARK 470 LYS A 6 CG CD CE NZ REMARK 470 ALA A 7 CB REMARK 470 GLU A 10 CD OE1 OE2 REMARK 470 GLN A 11 CG CD OE1 NE2 REMARK 470 GLU A 14 CG CD OE1 OE2 REMARK 470 GLU A 15 CG CD OE1 OE2 REMARK 470 LYS A 17 CD CE NZ REMARK 470 ASN A 18 CG OD1 ND2 REMARK 470 GLU A 19 CG CD OE1 OE2 REMARK 470 GLU A 32 CG CD OE1 OE2 REMARK 470 LYS A 39 CD CE NZ REMARK 470 LYS A 43 NZ REMARK 470 GLU A 66 CD OE1 OE2 REMARK 470 ASP A 75 OD1 OD2 REMARK 470 MET A 85 CE REMARK 470 LYS A 86 CG CD CE NZ REMARK 470 LYS A 137 CD CE NZ REMARK 470 ARG A 140 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 161 CG CD NE CZ NH1 NH2 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 CA A 201 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 65 OD1 REMARK 620 2 ASP A 67 OD1 75.3 REMARK 620 3 SER A 69 OG 90.4 80.2 REMARK 620 4 THR A 71 O 83.2 148.5 77.2 REMARK 620 5 GLU A 76 OE1 104.8 124.2 153.5 83.2 REMARK 620 6 GLU A 76 OE2 85.4 74.7 154.8 126.7 50.3 REMARK 620 7 HOH A 317 O 163.6 88.8 82.4 109.4 87.6 94.7 REMARK 620 N 1 2 3 4 5 6 DBREF 7SC2 A 1 137 UNP P63316 TNNC1_HUMAN 1 92 DBREF 7SC2 A 138 163 UNP P19429 TNNI3_HUMAN 139 164 SEQADV 7SC2 SER A 35 UNP P63316 CYS 35 ENGINEERED MUTATION SEQADV 7SC2 SER A 84 UNP P63316 CYS 84 ENGINEERED MUTATION SEQRES 1 A 118 MET ASP ASP ILE TYR LYS ALA ALA VAL GLU GLN LEU THR SEQRES 2 A 118 GLU GLU GLN LYS ASN GLU PHE LYS ALA ALA PHE ASP ILE SEQRES 3 A 118 PHE VAL LEU GLY ALA GLU ASP GLY SER ILE SER THR LYS SEQRES 4 A 118 GLU LEU GLY LYS VAL MET ARG MET LEU GLY GLN ASN PRO SEQRES 5 A 118 THR PRO GLU GLU LEU GLN GLU MET ILE ASP GLU VAL ASP SEQRES 6 A 118 GLU ASP GLY SER GLY THR VAL ASP PHE ASP GLU PHE LEU SEQRES 7 A 118 VAL MET MET VAL ARG SER MET LYS ASP ASP SER LYS GLY SEQRES 8 A 118 LYS PHE LYS ARG PRO THR LEU ARG ARG VAL ARG ILE SER SEQRES 9 A 118 ALA ASP ALA MET MET GLN ALA LEU LEU GLY ALA ARG ALA SEQRES 10 A 118 LYS HET CA A 201 1 HETNAM CA CALCIUM ION FORMUL 2 CA CA 2+ FORMUL 3 HOH *28(H2 O) HELIX 1 AA1 ASP A 3 GLN A 11 1 9 HELIX 2 AA2 THR A 13 VAL A 28 1 16 HELIX 3 AA3 SER A 37 LEU A 48 1 12 HELIX 4 AA4 THR A 53 ASP A 65 1 13 HELIX 5 AA5 ASP A 73 MET A 85 1 13 HELIX 6 AA6 PHE A 138 GLY A 159 1 22 LINK OD1 ASP A 65 CA CA A 201 1555 1555 2.25 LINK OD1 ASP A 67 CA CA A 201 1555 1555 2.51 LINK OG SER A 69 CA CA A 201 1555 1555 2.53 LINK O THR A 71 CA CA A 201 1555 1555 2.39 LINK OE1 GLU A 76 CA CA A 201 1555 1555 2.50 LINK OE2 GLU A 76 CA CA A 201 1555 1555 2.66 LINK CA CA A 201 O HOH A 317 1555 1555 2.36 CRYST1 40.935 40.935 128.932 90.00 90.00 90.00 P 43 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 0.024429 0.000000 0.000000 0.00000 SCALE2 0.000000 0.024429 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007756 0.00000