PDB Short entry for 2G9J HEADER STRUCTURAL PROTEIN 06-MAR-06 2G9J TITLE COMPLEX OF TM1A(1-14)ZIP WITH TM9A(251-284): A MODEL FOR THE TITLE 2 POLYMERIZATION DOMAIN ("OVERLAP REGION") OF TROPOMYOSIN, NORTHEAST TITLE 3 STRUCTURAL GENOMICS TARGET OR9 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TROPOMYOSIN 1 ALPHA CHAIN; COMPND 3 CHAIN: C, D; COMPND 4 FRAGMENT: TM9A(251-284); COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 OTHER_DETAILS: THIS PEPTIDE IS THE PRODUCT OF A SYNTHETIC GENE. IT COMPND 8 CONTAINS GCG AT THE N TERMINUS FOLLOWED BY RESIDUES 251-284 OF RAT COMPND 9 STRIATED TROPOMYOSIN. THE PEPTIDE HAS THE MUTATION N279K; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: TROPOMYOSIN 1 ALPHA CHAIN/GENERAL CONTROL PROTEIN GCN4; COMPND 12 CHAIN: A, B; COMPND 13 FRAGMENT: TM1A(1-14)ZIP; COMPND 14 ENGINEERED: YES; COMPND 15 OTHER_DETAILS: THIS PEPTIDE IS THE PRODUCT OF A SYNTHETIC GENE. IT COMPND 16 CONTAINS A GLY AT THE N TERMINUS FOLLOWED BY THE FIRST 14 RESIDUES OF COMPND 17 RAT STRIATED TROPOMYOSIN AND THE LAST 18 RESIDUES OF YEAST GCN4 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: NORWAY RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: TPM1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PSBET-HTB; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PPROEX HTA; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS, SACCHAROMYCES CEREVISIAE; SOURCE 13 ORGANISM_COMMON: NORWAY RAT, BAKER'S YEAST; SOURCE 14 ORGANISM_TAXID: 10116,4932; SOURCE 15 STRAIN: ,; SOURCE 16 GENE: TPM1; SOURCE 17 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 18 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 19 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) PLYSS; SOURCE 20 EXPRESSION_SYSTEM_VECTOR_TYPE: PPROEX HTB; SOURCE 21 EXPRESSION_SYSTEM_PLASMID: PSBETC, PET3A, AND PET11A CUT WITH NDEI SOURCE 22 AND BAMHI KEYWDS TROPOMYOSIN, PEPTIDE COMPLEX, OVERLAP COMPLEX, INTERMOLECULAR KEYWDS 2 JUNCTION, N-TERMINAL:C-TERMINAL INTERFACE, PARALLEL COILED COIL, KEYWDS 3 POLYMERIZATION DOMAIN, STRUCTURAL PROTEIN, STRUCTURAL GENOMICS, PSI- KEYWDS 4 2, PROTEIN STRUCTURE INITIATIVE, NORTHEAST STRUCTURAL GENOMICS KEYWDS 5 CONSORTIUM, NESG EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR N.J.GREENFIELD,Y.J.HUANG,G.V.T.SWAPNA,A.BHATTACHARYA,A.SINGH, AUTHOR 2 G.T.MONTELIONE,S.E.HITCHCOCK-DEGREGORI,NORTHEAST STRUCTURAL GENOMICS AUTHOR 3 CONSORTIUM (NESG) REVDAT 4 20-OCT-21 2G9J 1 REMARK SEQADV REVDAT 3 14-APR-10 2G9J 1 AUTHOR KEYWDS REMARK TITLE REVDAT 2 24-FEB-09 2G9J 1 VERSN REVDAT 1 07-NOV-06 2G9J 0 JRNL AUTH N.J.GREENFIELD,Y.J.HUANG,G.V.SWAPNA,A.BHATTACHARYA,B.RAPP, JRNL AUTH 2 A.SINGH,G.T.MONTELIONE,S.E.HITCHCOCK-DEGREGORI JRNL TITL SOLUTION NMR STRUCTURE OF THE JUNCTION BETWEEN TROPOMYOSIN JRNL TITL 2 MOLECULES: IMPLICATIONS FOR ACTIN BINDING AND REGULATION. JRNL REF J.MOL.BIOL. V. 364 80 2006 JRNL REFN ISSN 0022-2836 JRNL PMID 16999976 JRNL DOI 10.1016/J.JMB.2006.08.033 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AUTOSTRUCTURE CUSTOM, CNS 1.1 REMARK 3 AUTHORS : HUANG (AUTOSTRUCTURE), BRUNGER (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES WERE BASED ON A TOTAL OF REMARK 3 2630 RESTRAINTS, 2198 CONFORMATIONALLY RESTRICTING NOES, 232 REMARK 3 DIHEDRAL ANGLE CONSTRAINTS AND 200 HYDROGEN BOND CONSTRAINTS REMARK 4 REMARK 4 2G9J COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-MAR-06. REMARK 100 THE DEPOSITION ID IS D_1000036858. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 10 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.14 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM COMPLEX OF TM1A(1-14)ZIP U REMARK 210 -15N WITHTM9A(251-284)U15N, 100 REMARK 210 MM NACL, 10 MM SODIUM PHOSPATE REMARK 210 10% DEUTERIUM OXIDE PH 6.5; 1MM REMARK 210 COMPLEX OF TM1A(1-14)ZIP U15N/ REMARK 210 U13C WITH TM9A(251-284) UNLABLED, REMARK 210 100 MM NACL, 10 MM SODIUM REMARK 210 PHOSPATE 10% DEUTERIUM OXIDE PH REMARK 210 6.5; 1MM COMPLEX OF TM1A(1-14) REMARK 210 ZIP U15N/U13C WITH TM9A(251-284) REMARK 210 UNLABLED, 100 MM NACL, 10 MM REMARK 210 SODIUM PHOSPATE 99.9% DEUTERIUM REMARK 210 OXIDE PH 6.5; 1MM COMPLEX OF REMARK 210 TM1A(1-14)ZIP UNLABELED WITH REMARK 210 TM9A(251-284)U15N/U13C, 100 MM REMARK 210 NACL, 10 MM SODIUM PHOSPATE 10% REMARK 210 DEUTERIUM OXIDE PH 6.5 OR IN REMARK 210 99.9% DEUTERIUM OXIDE; 1MM REMARK 210 COMPLEX OF TM1A(1-14)ZIP REMARK 210 UNLABELED WITH TM9A(251-284)U15N/ REMARK 210 U13C, 100 MM NACL, 10 MM SODIUM REMARK 210 PHOSPATE 10% DEUTERIUM OXIDE REMARK 210 99.9% DEUTERIUM OXIDE, PH 6.5; REMARK 210 1MM COMPLEX OF TM1A(1-14), ONE REMARK 210 CHAIN LABELED U15N/U13C THE REMARK 210 OTHER CHAIN UNLABELED, WITH REMARK 210 UNLABELED TM9A(251-284), 100 MM REMARK 210 NACL, 10 MM SODIUM PHOSPATE 10% REMARK 210 DEUTERIUM OXIDE PH 6.5; 1MM REMARK 210 COMPLEX OF TM9A(251-284), ONE REMARK 210 CHAIN LABELED U15N/U13C THE REMARK 210 OTHER CHAIN UNLABELED, WITH REMARK 210 UNLABELE TM1A(1-14)ZIP, 100 MM REMARK 210 NACL, 10 MM SODIUM PHOSPATE 10% REMARK 210 DEUTERIUM OXIDE PH 6.5 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; 13C X-FILTERED REMARK 210 NOESY; 3D_15N-SEPARATED NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DYANA 1.5, VNMR 6.1 C, NMRPIPE REMARK 210 2005, SPARKY 3.74, XWINNMR 3.5 REMARK 210 PL 6 REMARK 210 METHOD USED : INITAIL STRUCTURE WAS CALCULATED REMARK 210 WITH TORSION ANGLE DYNAMICS AND REMARK 210 REFINED WITH SIMULATED ANNEALING REMARK 210 AND INCLUDED A TERM FOR EXPLICIT REMARK 210 SOLVENT IN THE REFINEMENT REMARK 210 PROTOCOL. REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 196 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : 10 STRUCTURES FROM INITIAL DYANA REMARK 210 CALCULTIONS WITH THE LOWEST REMARK 210 TARGET FUNCTIONS WERE REFINED REMARK 210 USING CNS. THE STRUCTURES BACK REMARK 210 CALCULATED DATA AGREE WITH REMARK 210 EXPERIMENTAL NOESY SPECTRA. THE REMARK 210 STRUCTURES HAVE ACCEPTABLE REMARK 210 COVALENT GEOMETRY, FAVORABLE NON- REMARK 210 BOND ENERGY, THE LOWEST ENERGY REMARK 210 AND THE FEWEST RESTRAINT REMARK 210 VIOLATIONS. 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, A, D, B 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 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 OXT ILE C 284 HZ2 LYS A 7 1.55 REMARK 500 HZ2 LYS A 12 OXT ILE D 284 1.58 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 LYS C 251 -73.85 -151.53 REMARK 500 1 MET C 281 49.44 -94.35 REMARK 500 1 LYS D 251 -51.50 -146.14 REMARK 500 1 THR D 282 -8.46 58.64 REMARK 500 1 ALA B 3 -71.26 -52.77 REMARK 500 2 LYS C 251 79.99 68.50 REMARK 500 2 SER C 252 -28.86 171.78 REMARK 500 2 THR C 282 -69.73 54.99 REMARK 500 2 CYS D 249 -35.90 -150.83 REMARK 500 2 LYS D 251 -69.56 -149.09 REMARK 500 2 MET D 281 41.95 -82.89 REMARK 500 3 CYS C 249 -17.84 -159.31 REMARK 500 3 SER C 252 -72.78 68.24 REMARK 500 3 MET C 281 -78.40 -109.43 REMARK 500 3 THR C 282 -0.98 66.75 REMARK 500 3 SER C 283 60.48 -151.10 REMARK 500 3 THR D 282 -32.60 69.63 REMARK 500 4 LYS C 251 -75.95 -151.70 REMARK 500 4 THR C 282 78.94 -57.60 REMARK 500 4 SER C 283 -36.64 -163.82 REMARK 500 4 GLU A 31 -71.28 -75.64 REMARK 500 4 SER D 252 -60.71 72.84 REMARK 500 4 THR D 282 14.19 49.38 REMARK 500 4 SER D 283 69.59 -151.19 REMARK 500 5 CYS C 249 -164.53 63.40 REMARK 500 5 LYS C 251 -39.32 74.33 REMARK 500 5 THR C 282 23.09 49.37 REMARK 500 5 MET A 1 101.18 -49.36 REMARK 500 5 SER D 252 14.76 58.13 REMARK 500 5 THR D 282 -57.74 70.39 REMARK 500 6 LYS C 251 -47.36 -131.19 REMARK 500 6 THR C 282 -37.23 71.43 REMARK 500 6 MET A 1 50.21 -140.95 REMARK 500 6 ALA A 3 -70.28 -48.53 REMARK 500 6 CYS D 249 -41.70 -158.38 REMARK 500 6 LYS D 251 -93.28 -157.79 REMARK 500 6 THR D 282 -28.10 59.27 REMARK 500 6 MET B 1 90.54 58.50 REMARK 500 6 ALA B 3 -75.38 -47.03 REMARK 500 7 SER C 252 -55.79 71.54 REMARK 500 7 THR C 282 -45.33 71.80 REMARK 500 7 SER C 283 71.61 -119.09 REMARK 500 7 ALA A 3 -75.12 -53.24 REMARK 500 7 MET D 281 47.87 -86.09 REMARK 500 7 THR D 282 31.18 -71.93 REMARK 500 8 MET C 281 -78.25 -67.41 REMARK 500 8 THR C 282 -26.47 63.33 REMARK 500 8 SER D 252 -29.75 76.79 REMARK 500 8 MET D 281 44.38 -100.76 REMARK 500 8 THR D 282 31.32 -69.83 REMARK 500 REMARK 500 THIS ENTRY HAS 62 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1TMZ RELATED DB: PDB REMARK 900 STRUCTURE OF A TWO-CHAIN COILED COIL CONTAINING THE FIRST 14 REMARK 900 RESIDUES OF THE N TERMINUS OF MUSCLE TROPOMYOSINS AND THE LAST 18 REMARK 900 RESIDUES OF THE C TERMINUS OF THE YEAST TRANSCRIPTION GCN4. THE REMARK 900 PEPTIDE IS ACETYLATED AT THE N TERMINUS. REMARK 900 RELATED ID: 1MV4 RELATED DB: PDB REMARK 900 TWO-CHAIN COILED-COIL SYNTHETIC MOLECULE CONTAINING RESIDUES 251- REMARK 900 284 OF THE C TERMINUS OF TROPOMYOSIN WITH GLYCYSGLY ARE AT THE N- REMARK 900 TERMINUS. THE CYSTINES ARE LINKED BY A DISULFIDE. REMARK 900 RELATED ID: OR9 RELATED DB: TARGETDB DBREF 2G9J A 1 14 UNP Q63609 TPM1_RAT 1 14 DBREF 2G9J A 15 32 UNP P03069 GCN4_YEAST 264 281 DBREF 2G9J B 1 14 UNP Q63609 TPM1_RAT 1 14 DBREF 2G9J B 15 32 UNP P03069 GCN4_YEAST 264 281 DBREF 2G9J C 251 284 UNP Q63609 TPM1_RAT 251 284 DBREF 2G9J D 251 284 UNP Q63609 TPM1_RAT 251 284 SEQADV 2G9J GLY A 0 UNP Q63609 CLONING ARTIFACT SEQADV 2G9J GLY B 0 UNP Q63609 CLONING ARTIFACT SEQADV 2G9J GLY C 248 UNP Q63609 CLONING ARTIFACT SEQADV 2G9J CYS C 249 UNP Q63609 CLONING ARTIFACT SEQADV 2G9J GLY C 250 UNP Q63609 CLONING ARTIFACT SEQADV 2G9J LYS C 279 UNP Q63609 ASN 279 ENGINEERED MUTATION SEQADV 2G9J GLY D 248 UNP Q63609 CLONING ARTIFACT SEQADV 2G9J CYS D 249 UNP Q63609 CLONING ARTIFACT SEQADV 2G9J GLY D 250 UNP Q63609 CLONING ARTIFACT SEQADV 2G9J LYS D 279 UNP Q63609 ASN 279 ENGINEERED MUTATION SEQRES 1 C 37 GLY CYS GLY LYS SER ILE ASP ASP LEU GLU ASP GLU LEU SEQRES 2 C 37 TYR ALA GLN LYS LEU LYS TYR LYS ALA ILE SER GLU GLU SEQRES 3 C 37 LEU ASP HIS ALA LEU LYS ASP MET THR SER ILE SEQRES 1 A 33 GLY MET ASP ALA ILE LYS LYS LYS MET GLN MET LEU LYS SEQRES 2 A 33 LEU ASP ASN TYR HIS LEU GLU ASN GLU VAL ALA ARG LEU SEQRES 3 A 33 LYS LYS LEU VAL GLY GLU ARG SEQRES 1 D 37 GLY CYS GLY LYS SER ILE ASP ASP LEU GLU ASP GLU LEU SEQRES 2 D 37 TYR ALA GLN LYS LEU LYS TYR LYS ALA ILE SER GLU GLU SEQRES 3 D 37 LEU ASP HIS ALA LEU LYS ASP MET THR SER ILE SEQRES 1 B 33 GLY MET ASP ALA ILE LYS LYS LYS MET GLN MET LEU LYS SEQRES 2 B 33 LEU ASP ASN TYR HIS LEU GLU ASN GLU VAL ALA ARG LEU SEQRES 3 B 33 LYS LYS LEU VAL GLY GLU ARG HELIX 1 1 SER C 252 MET C 281 1 30 HELIX 2 2 MET A 1 ARG A 32 1 32 HELIX 3 3 LYS D 251 THR D 282 1 32 HELIX 4 4 MET B 1 ARG B 32 1 32 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