HEADER TRANSFERASE 04-DEC-10 3PUC TITLE ATOMIC RESOLUTION STRUCTURE OF TITIN DOMAIN M7 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TITIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: DOMAIN M7 (UNP RESIDUES 33774-33871); COMPND 5 SYNONYM: CONNECTIN, RHABDOMYOSARCOMA ANTIGEN MU-RMS-40.14; COMPND 6 EC: 2.7.11.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TTN; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 STAR PRARE2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PETM14 KEYWDS I-SET IG-LIKE DOMAIN, M-BAND, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR F.SAUER,M.WILMANNS REVDAT 3 01-NOV-23 3PUC 1 REMARK SEQADV REVDAT 2 28-SEP-16 3PUC 1 REMARK REVDAT 1 21-DEC-11 3PUC 0 JRNL AUTH F.SAUER,M.WILMANNS JRNL TITL STRUCTURE OF TITIN M7 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 0.96 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.6.4_486 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 0.96 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.52 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.780 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 44284 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.116 REMARK 3 R VALUE (WORKING SET) : 0.116 REMARK 3 FREE R VALUE : 0.135 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.510 REMARK 3 FREE R VALUE TEST SET COUNT : 1998 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 19.5223 - 2.0677 1.00 4282 204 0.1266 0.1329 REMARK 3 2 2.0677 - 1.6414 0.99 4238 199 0.1071 0.1326 REMARK 3 3 1.6414 - 1.4340 0.99 4221 193 0.1073 0.1406 REMARK 3 4 1.4340 - 1.3029 0.99 4226 198 0.1029 0.1298 REMARK 3 5 1.3029 - 1.2096 1.00 4180 203 0.0960 0.1235 REMARK 3 6 1.2096 - 1.1383 1.00 4244 207 0.1022 0.1254 REMARK 3 7 1.1383 - 1.0813 1.00 4239 195 0.1055 0.1327 REMARK 3 8 1.0813 - 1.0342 1.00 4201 205 0.1161 0.1613 REMARK 3 9 1.0342 - 0.9944 1.00 4222 195 0.1335 0.1414 REMARK 3 10 0.9944 - 0.9601 1.00 4233 199 0.1633 0.1807 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.10 REMARK 3 SHRINKAGE RADIUS : 0.00 REMARK 3 K_SOL : 0.60 REMARK 3 B_SOL : 113.1 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.060 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 10.09 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.45630 REMARK 3 B22 (A**2) : 2.29920 REMARK 3 B33 (A**2) : -1.84300 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.79950 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.012 832 REMARK 3 ANGLE : 1.451 1146 REMARK 3 CHIRALITY : 0.082 135 REMARK 3 PLANARITY : 0.008 146 REMARK 3 DIHEDRAL : 10.696 304 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3PUC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-DEC-10. REMARK 100 THE DEPOSITION ID IS D_1000062821. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUL-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X12 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.82653 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44303 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.960 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 3.980 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.3800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.96 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 0.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.39700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 3KNB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 31.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS PH 8.0, 3.2M AMMONIUM REMARK 280 SULFATE, 1MM TCEP, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z 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 34.28500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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 ILE A 99 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 ARG A 35 CD NE CZ NH1 NH2 REMARK 470 LYS A 59 CG CD CE NZ 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 O HOH A 149 O HOH A 150 2.17 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 SO4 A 100 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3KNB RELATED DB: PDB REMARK 900 RELATED ID: 2BK8 RELATED DB: PDB DBREF 3PUC A 2 99 UNP Q8WZ42 TITIN_HUMAN 33774 33871 SEQADV 3PUC GLY A 1 UNP Q8WZ42 EXPRESSION TAG SEQRES 1 A 99 GLY PRO ILE SER SER LYS PRO VAL ILE VAL THR GLY LEU SEQRES 2 A 99 GLN ASP THR THR VAL SER SER ASP SER VAL ALA LYS PHE SEQRES 3 A 99 ALA VAL LYS ALA THR GLY GLU PRO ARG PRO THR ALA ILE SEQRES 4 A 99 TRP THR LYS ASP GLY LYS ALA ILE THR GLN GLY GLY LYS SEQRES 5 A 99 TYR LYS LEU SER GLU ASP LYS GLY GLY PHE PHE LEU GLU SEQRES 6 A 99 ILE HIS LYS THR ASP THR SER ASP SER GLY LEU TYR THR SEQRES 7 A 99 CYS THR VAL LYS ASN SER ALA GLY SER VAL SER SER SER SEQRES 8 A 99 CYS LYS LEU THR ILE LYS ALA ILE HET SO4 A 100 5 HET SO4 A 101 5 HETNAM SO4 SULFATE ION FORMUL 2 SO4 2(O4 S 2-) FORMUL 4 HOH *160(H2 O) HELIX 1 1 ASP A 70 SER A 74 5 5 SHEET 1 A 4 SER A 5 THR A 11 0 SHEET 2 A 4 ALA A 24 GLU A 33 -1 O LYS A 29 N VAL A 10 SHEET 3 A 4 GLY A 61 ILE A 66 -1 O ILE A 66 N ALA A 24 SHEET 4 A 4 TYR A 53 ASP A 58 -1 N SER A 56 O PHE A 63 SHEET 1 B 5 THR A 16 SER A 19 0 SHEET 2 B 5 GLY A 86 LYS A 97 1 O THR A 95 N THR A 16 SHEET 3 B 5 GLY A 75 ASN A 83 -1 N VAL A 81 O VAL A 88 SHEET 4 B 5 THR A 37 LYS A 42 -1 N THR A 37 O LYS A 82 SHEET 5 B 5 LYS A 45 ALA A 46 -1 O LYS A 45 N LYS A 42 CISPEP 1 GLU A 33 PRO A 34 0 -4.32 SITE 1 AC1 2 GLY A 1 HOH A 236 SITE 1 AC2 9 LYS A 29 ILE A 47 THR A 48 GLN A 49 SITE 2 AC2 9 LEU A 55 HOH A 130 HOH A 242 HOH A 248 SITE 3 AC2 9 HOH A 250 CRYST1 22.830 68.570 24.180 90.00 100.94 90.00 P 1 21 1 2 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 0.043802 0.000000 0.008463 0.00000 SCALE2 0.000000 0.014584 0.000000 0.00000 SCALE3 0.000000 0.000000 0.042121 0.00000