HEADER APOPTOSIS 14-FEB-07 2EDB TITLE SOLUTION STRUCTURE OF THE FOURTH FIBRONECTIN TYPE III TITLE 2 DOMAIN OF HUMAN NETRIN RECEPTOR DCC COMPND MOL_ID: 1; COMPND 2 MOLECULE: NETRIN RECEPTOR DCC; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: FOURTH FN3 DOMAIN; COMPND 5 SYNONYM: TUMOR SUPPRESSOR PROTEIN DCC, COLORECTAL CANCER COMPND 6 SUPPRESSOR; 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: DCC; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P050905-22; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS TUMOR SUPPRESSOR PROTEIN DCC, COLORECTAL CANCER SUPPRESSOR, KEYWDS 2 STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN KEYWDS 3 STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL KEYWDS 4 GENOMICS/PROTEOMICS INITIATIVE, RSGI, APOPTOSIS EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR N.TOCHIO,S.KOSHIBA,T.KIGAWA,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 2 24-FEB-09 2EDB 1 VERSN REVDAT 1 04-MAR-08 2EDB 0 JRNL AUTH N.TOCHIO,S.KOSHIBA,T.KIGAWA,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE FOURTH FIBRONECTIN TYPE JRNL TITL 2 III DOMAIN OF HUMAN NETRIN RECEPTOR DCC JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.0.17 REMARK 3 AUTHORS : GUNTERT, P. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2EDB COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-FEB-07. REMARK 100 THE RCSB ID CODE IS RCSB026523. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 296 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.2MM SAMPLE U-15N,13C; 20MM REMARK 210 D-TRIS-HCL; 100MM NACL; 1MM D- REMARK 210 DTT; 0.02% NAN3; 90% H2O, 10% REMARK 210 D2O' REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY, 3D_ REMARK 210 15N-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 3.5, NMRPIPE REMARK 210 20031121, NMNMRVIEW 5.0.4, REMARK 210 KUJIRA 0.955, CYANA 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS,TARGET REMARK 210 FUNCTION 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 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 GLU A 9 107.40 -58.01 REMARK 500 1 ASN A 10 -65.14 -102.05 REMARK 500 1 SER A 22 -37.07 -31.60 REMARK 500 1 THR A 30 -70.75 -53.67 REMARK 500 1 PRO A 59 14.44 -69.82 REMARK 500 1 VAL A 98 102.98 -32.81 REMARK 500 1 ALA A 104 107.85 -163.91 REMARK 500 1 THR A 106 171.32 -45.21 REMARK 500 1 SER A 111 151.17 -46.88 REMARK 500 2 SER A 2 42.11 -101.67 REMARK 500 2 SER A 3 42.15 -81.26 REMARK 500 2 PRO A 8 -173.53 -69.73 REMARK 500 2 GLU A 9 87.68 -68.92 REMARK 500 2 ASP A 19 173.76 -49.71 REMARK 500 2 SER A 22 -34.68 -32.92 REMARK 500 2 THR A 30 -71.04 -47.60 REMARK 500 2 LEU A 41 -19.92 -47.57 REMARK 500 2 PRO A 59 14.61 -69.74 REMARK 500 2 VAL A 98 103.37 -33.90 REMARK 500 2 ALA A 104 114.71 -164.36 REMARK 500 2 THR A 106 168.05 -44.20 REMARK 500 2 SER A 114 71.89 -68.97 REMARK 500 3 SER A 2 119.09 -160.89 REMARK 500 3 SER A 6 40.21 -92.44 REMARK 500 3 PRO A 8 -171.92 -69.78 REMARK 500 3 ASP A 11 46.51 73.34 REMARK 500 3 SER A 22 -38.58 -31.53 REMARK 500 3 PRO A 59 13.49 -69.83 REMARK 500 3 VAL A 98 103.38 -34.21 REMARK 500 3 ALA A 104 112.39 -163.53 REMARK 500 3 THR A 106 172.47 -45.77 REMARK 500 4 SER A 5 41.71 -83.18 REMARK 500 4 PRO A 8 -168.44 -69.80 REMARK 500 4 ASP A 11 38.60 74.95 REMARK 500 4 SER A 22 -38.00 -34.17 REMARK 500 4 PRO A 28 92.85 -69.77 REMARK 500 4 PRO A 59 15.63 -69.74 REMARK 500 4 SER A 81 52.29 73.98 REMARK 500 4 VAL A 98 102.79 -35.51 REMARK 500 4 SER A 115 131.88 -34.72 REMARK 500 5 GLU A 9 84.52 -54.79 REMARK 500 5 ASN A 10 -58.67 -127.52 REMARK 500 5 SER A 22 -36.49 -31.81 REMARK 500 5 THR A 30 -70.71 -48.64 REMARK 500 5 PRO A 59 15.80 -69.82 REMARK 500 5 VAL A 98 101.92 -35.13 REMARK 500 5 THR A 106 158.83 -43.34 REMARK 500 6 SER A 5 42.23 -81.60 REMARK 500 6 PRO A 8 -165.28 -69.77 REMARK 500 6 ASP A 19 172.93 -56.19 REMARK 500 6 SER A 22 -33.55 -38.29 REMARK 500 6 PRO A 59 14.86 -69.76 REMARK 500 6 VAL A 98 104.69 -33.67 REMARK 500 6 THR A 106 168.48 -43.57 REMARK 500 7 SER A 2 42.45 -87.11 REMARK 500 7 SER A 6 171.81 -53.35 REMARK 500 7 PRO A 8 2.16 -69.77 REMARK 500 7 GLU A 9 92.10 -42.65 REMARK 500 7 SER A 22 -38.56 -30.79 REMARK 500 7 THR A 30 -70.93 -45.38 REMARK 500 7 PRO A 59 13.93 -69.78 REMARK 500 7 VAL A 98 103.38 -33.52 REMARK 500 7 ALA A 104 105.18 -160.21 REMARK 500 7 THR A 106 157.82 -41.52 REMARK 500 8 SER A 2 -56.13 -123.68 REMARK 500 8 SER A 6 158.51 -45.77 REMARK 500 8 PRO A 8 -177.57 -69.77 REMARK 500 8 ASN A 10 -68.13 -124.82 REMARK 500 8 ASP A 19 175.58 -51.85 REMARK 500 8 PRO A 59 13.49 -69.77 REMARK 500 8 SER A 68 22.62 -79.67 REMARK 500 8 ASN A 92 -175.06 -171.08 REMARK 500 8 VAL A 98 104.16 -35.96 REMARK 500 8 THR A 106 167.88 -45.26 REMARK 500 9 SER A 5 45.53 -106.95 REMARK 500 9 PRO A 8 0.28 -69.77 REMARK 500 9 GLU A 9 91.44 -41.39 REMARK 500 9 SER A 15 -25.34 -39.94 REMARK 500 9 SER A 22 -39.38 -31.99 REMARK 500 9 PRO A 59 13.35 -69.76 REMARK 500 9 SER A 68 1.04 -68.88 REMARK 500 9 VAL A 98 103.71 -33.80 REMARK 500 9 ALA A 104 108.58 -161.96 REMARK 500 9 THR A 106 167.54 -47.49 REMARK 500 10 PRO A 8 -174.84 -69.81 REMARK 500 10 SER A 22 -35.46 -32.67 REMARK 500 10 THR A 30 -70.87 -58.14 REMARK 500 10 PRO A 43 0.34 -69.72 REMARK 500 10 PRO A 59 15.17 -69.77 REMARK 500 10 SER A 81 48.00 73.33 REMARK 500 10 ASN A 92 -175.01 -170.31 REMARK 500 10 VAL A 98 103.17 -34.55 REMARK 500 10 ALA A 104 112.35 -166.43 REMARK 500 10 THR A 106 171.52 -45.61 REMARK 500 10 PRO A 113 2.09 -69.77 REMARK 500 11 SER A 5 41.52 -101.20 REMARK 500 11 PRO A 8 3.39 -69.72 REMARK 500 11 SER A 22 -36.54 -32.05 REMARK 500 11 PRO A 59 12.70 -69.72 REMARK 500 11 SER A 81 52.35 73.62 REMARK 500 11 VAL A 98 105.83 -33.12 REMARK 500 11 ALA A 104 112.20 -166.10 REMARK 500 11 THR A 106 170.61 -44.89 REMARK 500 11 ILE A 109 134.52 -37.42 REMARK 500 11 PRO A 113 85.52 -69.74 REMARK 500 12 PRO A 8 0.96 -69.76 REMARK 500 12 SER A 15 -24.76 -39.60 REMARK 500 12 SER A 22 -34.93 -33.05 REMARK 500 12 PRO A 59 17.51 -69.71 REMARK 500 12 SER A 68 20.46 -78.43 REMARK 500 12 SER A 81 54.91 74.96 REMARK 500 12 VAL A 98 102.89 -34.25 REMARK 500 12 THR A 106 173.02 -46.18 REMARK 500 13 PRO A 8 -175.94 -69.76 REMARK 500 13 SER A 22 -33.92 -32.95 REMARK 500 13 LEU A 41 -19.04 -47.13 REMARK 500 13 PRO A 59 15.74 -69.82 REMARK 500 13 VAL A 98 104.34 -37.23 REMARK 500 13 THR A 106 170.93 -45.47 REMARK 500 13 SER A 111 120.85 -39.65 REMARK 500 14 PRO A 8 1.28 -69.79 REMARK 500 14 SER A 22 -33.03 -34.14 REMARK 500 14 PRO A 28 95.41 -69.83 REMARK 500 14 THR A 30 -70.52 -57.41 REMARK 500 14 PRO A 59 11.65 -69.73 REMARK 500 14 SER A 81 55.00 74.62 REMARK 500 14 VAL A 98 102.87 -34.16 REMARK 500 14 THR A 106 166.30 -49.08 REMARK 500 14 ILE A 109 114.78 -37.52 REMARK 500 14 SER A 111 44.96 35.56 REMARK 500 15 ASN A 10 -60.23 -101.55 REMARK 500 15 ASP A 19 171.77 -56.25 REMARK 500 15 SER A 22 -28.77 -36.90 REMARK 500 15 THR A 30 -71.35 -53.92 REMARK 500 15 PRO A 59 16.07 -69.82 REMARK 500 15 SER A 68 30.46 -82.04 REMARK 500 15 VAL A 98 104.80 -35.69 REMARK 500 15 ALA A 104 113.19 -163.62 REMARK 500 15 THR A 106 169.75 -44.32 REMARK 500 16 PRO A 8 -166.41 -69.75 REMARK 500 16 SER A 22 -34.09 -33.49 REMARK 500 16 PRO A 59 16.98 -69.77 REMARK 500 16 SER A 68 20.11 -78.70 REMARK 500 16 VAL A 98 102.69 -35.31 REMARK 500 16 THR A 106 165.68 -44.08 REMARK 500 16 THR A 110 73.32 -63.29 REMARK 500 16 SER A 115 113.51 -172.01 REMARK 500 17 SER A 2 -53.88 -121.33 REMARK 500 17 SER A 6 40.27 36.59 REMARK 500 17 PRO A 8 -168.46 -69.78 REMARK 500 17 ASN A 10 80.39 -60.33 REMARK 500 17 SER A 15 -18.69 -49.65 REMARK 500 17 SER A 22 -38.62 -30.32 REMARK 500 17 LEU A 41 -18.42 -47.05 REMARK 500 17 PRO A 59 14.49 -69.73 REMARK 500 17 VAL A 98 106.29 -32.17 REMARK 500 17 ALA A 104 106.11 -163.38 REMARK 500 17 THR A 106 162.21 -42.34 REMARK 500 18 SER A 6 37.62 38.35 REMARK 500 18 ASN A 10 106.97 -168.80 REMARK 500 18 PRO A 28 92.77 -69.79 REMARK 500 18 THR A 30 -70.78 -58.83 REMARK 500 18 PRO A 59 16.34 -69.73 REMARK 500 18 SER A 81 48.86 72.72 REMARK 500 18 VAL A 98 103.43 -31.54 REMARK 500 18 THR A 106 154.93 -42.44 REMARK 500 19 SER A 22 -40.78 -29.74 REMARK 500 19 PRO A 59 13.05 -69.79 REMARK 500 19 VAL A 98 106.07 -32.81 REMARK 500 19 ALA A 104 111.40 -163.07 REMARK 500 19 THR A 106 172.15 -45.24 REMARK 500 19 SER A 114 126.78 -39.06 REMARK 500 20 SER A 3 40.83 70.81 REMARK 500 20 ASN A 10 109.82 -164.03 REMARK 500 20 ASP A 11 38.11 72.08 REMARK 500 20 ASP A 19 177.32 -48.14 REMARK 500 20 SER A 22 -34.27 -34.02 REMARK 500 20 PRO A 59 14.26 -69.76 REMARK 500 20 SER A 68 0.72 -67.53 REMARK 500 20 ALA A 104 106.01 -162.73 REMARK 500 20 THR A 106 171.62 -45.41 REMARK 500 20 THR A 110 139.93 -37.86 REMARK 500 20 SER A 115 142.52 -34.80 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSO002001052.4 RELATED DB: TARGETDB DBREF 2EDB A 8 110 UNP P43146 DCC_HUMAN 716 818 SEQADV 2EDB GLY A 1 UNP P43146 EXPRESSION TAG SEQADV 2EDB SER A 2 UNP P43146 EXPRESSION TAG SEQADV 2EDB SER A 3 UNP P43146 EXPRESSION TAG SEQADV 2EDB GLY A 4 UNP P43146 EXPRESSION TAG SEQADV 2EDB SER A 5 UNP P43146 EXPRESSION TAG SEQADV 2EDB SER A 6 UNP P43146 EXPRESSION TAG SEQADV 2EDB GLY A 7 UNP P43146 EXPRESSION TAG SEQADV 2EDB SER A 111 UNP P43146 EXPRESSION TAG SEQADV 2EDB GLY A 112 UNP P43146 EXPRESSION TAG SEQADV 2EDB PRO A 113 UNP P43146 EXPRESSION TAG SEQADV 2EDB SER A 114 UNP P43146 EXPRESSION TAG SEQADV 2EDB SER A 115 UNP P43146 EXPRESSION TAG SEQADV 2EDB GLY A 116 UNP P43146 EXPRESSION TAG SEQRES 1 A 116 GLY SER SER GLY SER SER GLY PRO GLU ASN ASP LEU ASP SEQRES 2 A 116 GLU SER GLN VAL PRO ASP GLN PRO SER SER LEU HIS VAL SEQRES 3 A 116 ARG PRO GLN THR ASN CYS ILE ILE MET SER TRP THR PRO SEQRES 4 A 116 PRO LEU ASN PRO ASN ILE VAL VAL ARG GLY TYR ILE ILE SEQRES 5 A 116 GLY TYR GLY VAL GLY SER PRO TYR ALA GLU THR VAL ARG SEQRES 6 A 116 VAL ASP SER LYS GLN ARG TYR TYR SER ILE GLU ARG LEU SEQRES 7 A 116 GLU SER SER SER HIS TYR VAL ILE SER LEU LYS ALA PHE SEQRES 8 A 116 ASN ASN ALA GLY GLU GLY VAL PRO LEU TYR GLU SER ALA SEQRES 9 A 116 THR THR ARG SER ILE THR SER GLY PRO SER SER GLY SHEET 1 A 3 LEU A 24 PRO A 28 0 SHEET 2 A 3 ILE A 33 TRP A 37 -1 O ILE A 34 N ARG A 27 SHEET 3 A 3 TYR A 72 ILE A 75 -1 O ILE A 75 N ILE A 33 SHEET 1 B 4 GLU A 62 ASP A 67 0 SHEET 2 B 4 GLY A 49 VAL A 56 -1 N ILE A 52 O VAL A 64 SHEET 3 B 4 TYR A 84 ASN A 92 -1 O LYS A 89 N ILE A 51 SHEET 4 B 4 GLY A 95 GLU A 96 -1 O GLY A 95 N ASN A 92 SHEET 1 C 4 GLU A 62 ASP A 67 0 SHEET 2 C 4 GLY A 49 VAL A 56 -1 N ILE A 52 O VAL A 64 SHEET 3 C 4 TYR A 84 ASN A 92 -1 O LYS A 89 N ILE A 51 SHEET 4 C 4 LEU A 100 GLU A 102 -1 O LEU A 100 N LEU A 88 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 ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL MASTER 256 0 0 0 11 0 0 6 0 0 0 9 END