PDB Short entry for 1M3B HEADER PROTEIN BINDING 27-JUN-02 1M3B TITLE SOLUTION STRUCTURE OF A CIRCULAR FORM OF THE N-TERMINAL SH3 DOMAIN TITLE 2 (A134C, E135G, R191G MUTANT) FROM ONCOGENE PROTEIN C-CRK. COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTO-ONCOGENE C-CRK; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL SH3 DOMAIN (RESIDUES 134-191); COMPND 5 SYNONYM: P38, ADAPTER MOLECULE CRK; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: CRK; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1 KEYWDS SH3, SH3 DOMAIN, CIRCULAR PROTEIN, CYCLIZED PROTEIN, ADAPTOR PROTEIN, KEYWDS 2 PROTEIN BINDING EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR F.H.SCHUMANN,R.VARADAN,P.P.TAYAKUNIYIL,J.B.HALL,J.A.CAMARERO, AUTHOR 2 D.FUSHMAN REVDAT 3 27-OCT-21 1M3B 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1M3B 1 VERSN REVDAT 1 05-AUG-03 1M3B 0 JRNL AUTH F.H.SCHUMANN,R.VARADAN,P.P.TAYAKUNIYIL,J.B.HALL, JRNL AUTH 2 J.A.CAMARERO,D.FUSHMAN JRNL TITL CHANGING PROTEIN BACKBONE TOPOLOGY: STRUCTURAL AND DYNAMIC JRNL TITL 2 CONSEQUENCES OF THE BACKBONE CYCLIZATION IN SH3 DOMAIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.A.CAMARERO,D.FUSHMAN,S.SATO,I.GIRIAT,D.COWBURN, REMARK 1 AUTH 2 D.P.RALEIGH,T.W.MUIR REMARK 1 TITL RESCUING A DESTABILIZED PROTEIN FOLD THROUGH BACKBONE REMARK 1 TITL 2 CYCLIZATION REMARK 1 REF J.MOL.BIOL. V. 308 1045 2001 REMARK 1 REFN ISSN 0022-2836 REMARK 1 DOI 10.1006/JMBI.2001.4631 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6,3.0, DYANA REMARK 3 AUTHORS : BRUKER (XWINNMR), GUENTERT, WUETHRICH (DYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON 1151 REMARK 3 RESTRAINTS, 1054 ARE NOE-DERIVED DISTANCE CONTRAINTS, 25 REMARK 3 DIHEDRAL ANGLE CONSTRAINTS, AND 72 DISTANCE RESTRAINTS FROM REMARK 3 HYDROGEN BONDS. STRUCTURES WERE CALCULATED USING PROGRAM DYANA. REMARK 3 NO FURTHER REFINEMENT WAS PERFORMED. REMARK 4 REMARK 4 1M3B COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-JUL-02. REMARK 100 THE DEPOSITION ID IS D_1000016544. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 307 REMARK 210 PH : 7.2 REMARK 210 IONIC STRENGTH : 100 MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM SH3 NA, 20MM SODIUM REMARK 210 PHOSPHATE, 20 MM DTT-D10, 100 MM REMARK 210 NACL, 0.1% (W/V) NAN3; 1MM SH3 U- REMARK 210 15N, 20MM SODIUM PHOSPHATE, 20 REMARK 210 MM DTT-D10, 100 MM NACL, 0.1% (W/ REMARK 210 V) NAN3 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D TOCSY; 2D NOESY; DQF-COSY; 2D REMARK 210 HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XEASY 1.3.1.3, DYANA 1.5 REMARK 210 METHOD USED : SIMULATED ANNEALING COMBINED REMARK 210 WITH TORSION ANGLE DYNAMICS 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 TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES COMBINED WITH 2D 1H-15N HSQC DATA. 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 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 ASN A 146 60.66 -159.47 REMARK 500 1 GLU A 148 39.16 -86.63 REMARK 500 1 GLU A 149 -39.73 -144.49 REMARK 500 1 GLN A 168 -49.93 -155.40 REMARK 500 1 ASP A 174 176.69 -57.41 REMARK 500 2 ASN A 146 48.20 176.38 REMARK 500 2 GLU A 148 45.87 -81.64 REMARK 500 2 GLU A 149 -37.63 -160.41 REMARK 500 2 GLN A 168 -60.89 -171.67 REMARK 500 2 ASP A 174 171.07 -55.02 REMARK 500 2 SER A 175 29.93 -77.94 REMARK 500 3 PHE A 141 135.14 -170.62 REMARK 500 3 ASN A 146 -58.64 -173.70 REMARK 500 3 ASP A 147 123.91 166.09 REMARK 500 3 GLN A 168 -66.52 170.15 REMARK 500 3 SER A 175 31.61 -80.59 REMARK 500 4 PHE A 141 118.45 -165.20 REMARK 500 4 ASN A 146 -36.36 178.03 REMARK 500 4 GLU A 148 31.71 -87.06 REMARK 500 4 LYS A 155 106.77 -47.16 REMARK 500 4 GLN A 168 -51.95 79.43 REMARK 500 4 TYR A 190 75.34 -111.18 REMARK 500 5 TYR A 136 -144.83 -144.45 REMARK 500 5 LEU A 140 40.11 -99.51 REMARK 500 5 ASN A 146 74.55 -179.05 REMARK 500 5 GLU A 148 43.18 -86.14 REMARK 500 5 GLU A 149 -41.00 -154.83 REMARK 500 5 GLU A 166 176.67 -51.61 REMARK 500 5 GLN A 168 -56.71 -175.84 REMARK 500 5 ASP A 174 173.43 -54.39 REMARK 500 6 LEU A 140 42.17 -106.12 REMARK 500 6 ASN A 146 -45.24 -174.34 REMARK 500 6 GLU A 148 39.34 -86.02 REMARK 500 6 ARG A 162 -64.87 -101.24 REMARK 500 6 LYS A 164 100.14 84.78 REMARK 500 6 GLU A 166 -145.73 30.99 REMARK 500 6 GLU A 167 44.96 -165.74 REMARK 500 6 GLN A 168 -60.61 -175.23 REMARK 500 6 ASP A 174 172.55 -57.33 REMARK 500 6 TYR A 186 40.58 -84.99 REMARK 500 7 LEU A 140 47.45 -107.77 REMARK 500 7 PHE A 141 134.40 178.12 REMARK 500 7 ASN A 146 43.55 178.57 REMARK 500 7 ASP A 147 174.22 54.72 REMARK 500 7 GLU A 149 -34.95 178.60 REMARK 500 7 ASP A 150 124.83 167.81 REMARK 500 7 GLN A 168 -52.45 76.27 REMARK 500 7 ASP A 174 173.78 -56.70 REMARK 500 7 TYR A 186 33.74 -91.55 REMARK 500 8 LEU A 140 41.63 -97.86 REMARK 500 REMARK 500 THIS ENTRY HAS 151 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1M30 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF N-TERMINAL SH3 DOMAIN FROM ONCOGENE PROTEIN C- REMARK 900 CRK REMARK 900 RELATED ID: 1M3A RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF A CIRCULAR FORM OF THE TRUNCATED N-TERMINAL REMARK 900 SH3 DOMAIN FROM ONCOGENE PROTEIN C-CRK. REMARK 900 RELATED ID: 1M3C RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF A CIRCULAR FORM OF THE N-TERMINAL SH3 DOMAIN REMARK 900 FROM ONCOGENE PROTEIN C-CRK DBREF 1M3B A 134 191 UNP Q64010 CRK_MOUSE 134 191 SEQADV 1M3B CYS A 134 UNP Q64010 ALA 134 ENGINEERED MUTATION SEQADV 1M3B GLY A 135 UNP Q64010 GLU 135 ENGINEERED MUTATION SEQADV 1M3B GLY A 191 UNP Q64010 ARG 191 ENGINEERED MUTATION SEQRES 1 A 58 CYS GLY TYR VAL ARG ALA LEU PHE ASP PHE ASN GLY ASN SEQRES 2 A 58 ASP GLU GLU ASP LEU PRO PHE LYS LYS GLY ASP ILE LEU SEQRES 3 A 58 ARG ILE ARG ASP LYS PRO GLU GLU GLN TRP TRP ASN ALA SEQRES 4 A 58 GLU ASP SER GLU GLY LYS ARG GLY MET ILE PRO VAL PRO SEQRES 5 A 58 TYR VAL GLU LYS TYR GLY SHEET 1 A 5 ARG A 179 PRO A 183 0 SHEET 2 A 5 TRP A 169 ASP A 174 -1 N TRP A 170 O ILE A 182 SHEET 3 A 5 LYS A 155 ASP A 163 -1 N ASP A 163 O ASN A 171 SHEET 4 A 5 TYR A 136 LEU A 140 -1 N VAL A 137 O LEU A 159 SHEET 5 A 5 VAL A 187 GLY A 191 -1 O GLY A 191 N TYR A 136 LINK N CYS A 134 C GLY A 191 1555 1555 1.49 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