HEADER APOPTOSIS 14-FEB-07 2ED7 TITLE SOLUTION STRUCTURE OF THE FIRST FIBRONECTIN TYPE III DOMAIN OF HUMAN TITLE 2 NETRIN RECEPTOR DCC COMPND MOL_ID: 1; COMPND 2 MOLECULE: NETRIN RECEPTOR DCC; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: FIRST FN3 DOMAIN, FIBRONECTIN TYPE-III 1; COMPND 5 SYNONYM: TUMOR SUPPRESSOR PROTEIN DCC, COLORECTAL CANCER SUPPRESSOR; COMPND 6 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: P050905-20; 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 STRUCTURAL KEYWDS 3 AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 4 INITIATIVE, RSGI, APOPTOSIS EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR N.TOCHIO,S.KOSHIBA,T.TOMIZAWA,T.KIGAWA,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 09-MAR-22 2ED7 1 REMARK SEQADV REVDAT 2 24-FEB-09 2ED7 1 VERSN REVDAT 1 26-FEB-08 2ED7 0 JRNL AUTH N.TOCHIO,S.KOSHIBA,T.TOMIZAWA,T.KIGAWA,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE FIRST FIBRONECTIN TYPE III DOMAIN JRNL TITL 2 OF HUMAN NETRIN RECEPTOR DCC JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, CYANA 2.0.17 REMARK 3 AUTHORS : BRUKER (XWINNMR), GUNTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2ED7 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-FEB-07. REMARK 100 THE DEPOSITION ID IS D_1000026520. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.3MM SAMPLE U-15N,13C; 20MM D REMARK 210 -TRIS-HCL; 100MM NACL; 1MM D-DTT; REMARK 210 0.02% NAN3; 10% D2O, 90% H2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 20031121, NMNMRVIEW REMARK 210 5.0.4, 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 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: 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 SER A 5 52.74 39.08 REMARK 500 1 SER A 14 40.79 36.81 REMARK 500 1 ASP A 23 96.25 -36.53 REMARK 500 1 PRO A 26 80.01 -69.72 REMARK 500 1 THR A 50 -179.37 -170.34 REMARK 500 1 ASP A 60 155.03 -38.66 REMARK 500 1 THR A 68 105.69 -174.57 REMARK 500 1 PRO A 71 83.80 -69.77 REMARK 500 1 ASN A 80 41.84 70.19 REMARK 500 1 SER A 114 51.69 34.39 REMARK 500 1 SER A 117 126.05 -37.99 REMARK 500 2 LYS A 8 143.09 -171.19 REMARK 500 2 PRO A 9 -163.85 -69.76 REMARK 500 2 PRO A 12 99.29 -69.75 REMARK 500 2 SER A 15 -75.26 -112.38 REMARK 500 2 SER A 19 156.43 -43.22 REMARK 500 2 ASP A 23 103.18 -45.36 REMARK 500 2 PRO A 26 80.17 -69.74 REMARK 500 2 ASP A 60 172.77 -47.65 REMARK 500 2 THR A 68 107.03 -169.94 REMARK 500 2 PRO A 71 84.59 -69.75 REMARK 500 2 ASN A 80 47.31 70.11 REMARK 500 2 THR A 110 170.20 -50.55 REMARK 500 2 PRO A 116 0.56 -69.77 REMARK 500 3 SER A 6 42.80 36.82 REMARK 500 3 LYS A 8 77.93 -116.80 REMARK 500 3 ALA A 10 30.53 -93.39 REMARK 500 3 SER A 13 158.22 -44.28 REMARK 500 3 SER A 19 157.69 -45.06 REMARK 500 3 ASP A 23 105.36 -31.44 REMARK 500 3 PRO A 26 79.77 -69.71 REMARK 500 3 ARG A 32 -50.84 -133.46 REMARK 500 3 THR A 68 106.36 -166.15 REMARK 500 3 GLN A 70 161.21 -39.86 REMARK 500 3 PRO A 71 88.30 -69.68 REMARK 500 3 THR A 110 169.13 -47.70 REMARK 500 3 PRO A 116 83.73 -69.74 REMARK 500 3 SER A 117 106.03 -40.18 REMARK 500 4 PRO A 9 1.67 -69.78 REMARK 500 4 PRO A 12 1.60 -69.81 REMARK 500 4 ASP A 23 93.29 -35.77 REMARK 500 4 PRO A 26 84.35 -69.76 REMARK 500 4 ASN A 47 128.62 -172.82 REMARK 500 4 GLU A 58 104.92 -35.95 REMARK 500 4 THR A 68 112.14 -174.89 REMARK 500 4 GLN A 70 155.08 -44.41 REMARK 500 4 PRO A 71 86.55 -69.72 REMARK 500 4 ASN A 80 50.18 71.78 REMARK 500 4 GLU A 101 150.52 -44.31 REMARK 500 4 THR A 110 162.06 -45.20 REMARK 500 REMARK 500 THIS ENTRY HAS 247 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSO002001052.1 RELATED DB: TARGETDB DBREF 2ED7 A 8 113 UNP P43146 DCC_HUMAN 419 524 SEQADV 2ED7 GLY A 1 UNP P43146 EXPRESSION TAG SEQADV 2ED7 SER A 2 UNP P43146 EXPRESSION TAG SEQADV 2ED7 SER A 3 UNP P43146 EXPRESSION TAG SEQADV 2ED7 GLY A 4 UNP P43146 EXPRESSION TAG SEQADV 2ED7 SER A 5 UNP P43146 EXPRESSION TAG SEQADV 2ED7 SER A 6 UNP P43146 EXPRESSION TAG SEQADV 2ED7 GLY A 7 UNP P43146 EXPRESSION TAG SEQADV 2ED7 SER A 114 UNP P43146 EXPRESSION TAG SEQADV 2ED7 GLY A 115 UNP P43146 EXPRESSION TAG SEQADV 2ED7 PRO A 116 UNP P43146 EXPRESSION TAG SEQADV 2ED7 SER A 117 UNP P43146 EXPRESSION TAG SEQADV 2ED7 SER A 118 UNP P43146 EXPRESSION TAG SEQADV 2ED7 GLY A 119 UNP P43146 EXPRESSION TAG SEQRES 1 A 119 GLY SER SER GLY SER SER GLY LYS PRO ALA ILE PRO SER SEQRES 2 A 119 SER SER VAL LEU PRO SER ALA PRO ARG ASP VAL VAL PRO SEQRES 3 A 119 VAL LEU VAL SER SER ARG PHE VAL ARG LEU SER TRP ARG SEQRES 4 A 119 PRO PRO ALA GLU ALA LYS GLY ASN ILE GLN THR PHE THR SEQRES 5 A 119 VAL PHE PHE SER ARG GLU GLY ASP ASN ARG GLU ARG ALA SEQRES 6 A 119 LEU ASN THR THR GLN PRO GLY SER LEU GLN LEU THR VAL SEQRES 7 A 119 GLY ASN LEU LYS PRO GLU ALA MET TYR THR PHE ARG VAL SEQRES 8 A 119 VAL ALA TYR ASN GLU TRP GLY PRO GLY GLU SER SER GLN SEQRES 9 A 119 PRO ILE LYS VAL ALA THR GLN PRO GLU SER GLY PRO SER SEQRES 10 A 119 SER GLY SHEET 1 A 3 VAL A 25 VAL A 29 0 SHEET 2 A 3 VAL A 34 SER A 37 -1 O ARG A 35 N LEU A 28 SHEET 3 A 3 GLN A 75 VAL A 78 -1 O VAL A 78 N VAL A 34 SHEET 1 B 3 ARG A 64 ASN A 67 0 SHEET 2 B 3 ILE A 48 ARG A 57 -1 N VAL A 53 O LEU A 66 SHEET 3 B 3 VAL A 92 ASN A 95 -1 O VAL A 92 N THR A 52 SHEET 1 C 4 ARG A 64 ASN A 67 0 SHEET 2 C 4 ILE A 48 ARG A 57 -1 N VAL A 53 O LEU A 66 SHEET 3 C 4 MET A 86 PHE A 89 -1 O THR A 88 N SER A 56 SHEET 4 C 4 ILE A 106 ALA A 109 -1 O VAL A 108 N TYR A 87 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 MODEL 1