HEADER TRANSFERASE 16-JUN-07 2Z4F TITLE SOLUTION STRUCTURE OF THE DISCOIDIN DOMAIN OF DDR2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DISCOIDIN DOMAIN-CONTAINING RECEPTOR 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: F5/8 TYPE C, DISCOIDIN DOMAIN, RESIDUES 26-186; COMPND 5 SYNONYM: DISCOIDIN DOMAIN RECEPTOR 2, RECEPTOR PROTEIN-TYROSINE COMPND 6 KINASE TKT, TYROSINE-PROTEIN KINASE TYRO10, NEUROTROPHIC TYROSINE COMPND 7 KINASE, RECEPTOR-RELATED 3, CD167B ANTIGEN; COMPND 8 EC: 2.7.10.1; COMPND 9 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: DDR2; SOURCE 6 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922 KEYWDS BETA BARREL, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR O.ICHIKAWA,M.OSAWA,N.NISHIDA,N.GOSHIMA,N.NOMURA,I.SHIMADA REVDAT 4 16-MAR-22 2Z4F 1 REMARK SEQADV REVDAT 3 24-FEB-09 2Z4F 1 VERSN REVDAT 2 16-OCT-07 2Z4F 1 JRNL REVDAT 1 04-SEP-07 2Z4F 0 JRNL AUTH O.ICHIKAWA,M.OSAWA,N.NISHIDA,N.GOSHIMA,N.NOMURA,I.SHIMADA JRNL TITL STRUCTURAL BASIS OF THE COLLAGEN-BINDING MODE OF DISCOIDIN JRNL TITL 2 DOMAIN RECEPTOR 2 JRNL REF EMBO J. V. 26 4168 2007 JRNL REFN ISSN 0261-4189 JRNL PMID 17703188 JRNL DOI 10.1038/SJ.EMBOJ.7601833 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.1 REMARK 3 AUTHORS : GUNTERT, P. ET AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2Z4F COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000027507. 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 : 0.1M REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.4MM DDR2 U-15N,13C; 10MM REMARK 210 PHOSPHATE BUFFER; 100MM NACL; 95% REMARK 210 H2O, 5% D2O; 0.4MM DDR2 U-15N, REMARK 210 13C; 10MM PHOSPHATE BUFFER; REMARK 210 100MM NACL; 100% D2O; 0.4MM DDR2 REMARK 210 U-15N; 10MM PHOSPHATE BUFFER; REMARK 210 100MM NACL; 95% H2O, 5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; HNHA; 3D_15N- REMARK 210 SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA 2.1 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY. 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLU A 22 REMARK 465 ALA A 23 REMARK 465 GLU A 24 REMARK 465 PHE A 25 REMARK 465 GLY A 187 REMARK 465 SER A 188 REMARK 465 GLY A 189 REMARK 465 SER A 190 REMARK 465 ILE A 191 REMARK 465 GLU A 192 REMARK 465 GLY A 193 REMARK 465 ARG A 194 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 PRO A 42 -170.08 -69.74 REMARK 500 1 SER A 49 42.97 -94.95 REMARK 500 1 SER A 50 47.97 -178.54 REMARK 500 1 SER A 53 -169.51 -129.13 REMARK 500 1 LEU A 63 -75.53 -59.04 REMARK 500 1 ASP A 64 53.80 -94.22 REMARK 500 1 GLU A 66 117.41 -165.43 REMARK 500 1 PRO A 74 -166.93 -69.75 REMARK 500 1 PHE A 86 -174.41 -179.83 REMARK 500 1 LEU A 94 103.89 -50.12 REMARK 500 1 HIS A 106 124.00 -174.39 REMARK 500 1 TYR A 118 140.97 -174.85 REMARK 500 1 PRO A 158 -169.89 -69.79 REMARK 500 1 ALA A 161 -172.07 -173.47 REMARK 500 2 PRO A 42 -170.66 -69.72 REMARK 500 2 SER A 50 59.38 -178.12 REMARK 500 2 TRP A 52 -54.07 -125.22 REMARK 500 2 GLU A 66 111.08 -160.90 REMARK 500 2 PRO A 74 -170.46 -69.72 REMARK 500 2 PHE A 86 -175.21 -179.94 REMARK 500 2 HIS A 110 -57.53 -127.49 REMARK 500 2 TYR A 118 134.91 -174.51 REMARK 500 2 ASP A 125 -71.19 -79.34 REMARK 500 2 ASN A 144 133.54 -174.37 REMARK 500 2 ASN A 146 67.91 63.32 REMARK 500 2 TYR A 148 -55.33 -125.57 REMARK 500 2 PRO A 158 -169.56 -69.74 REMARK 500 3 PRO A 42 -170.79 -69.78 REMARK 500 3 SER A 49 39.11 -97.83 REMARK 500 3 SER A 50 50.22 -177.51 REMARK 500 3 THR A 56 32.15 -150.04 REMARK 500 3 PRO A 74 -169.32 -69.76 REMARK 500 3 ASP A 82 79.07 -106.50 REMARK 500 3 PHE A 86 -175.64 -179.61 REMARK 500 3 LEU A 94 103.83 -51.38 REMARK 500 3 HIS A 95 -169.62 -128.41 REMARK 500 3 PHE A 114 -169.82 -173.20 REMARK 500 3 TYR A 148 -39.64 -132.04 REMARK 500 3 PRO A 158 -168.58 -69.75 REMARK 500 3 ALA A 161 -176.02 -179.00 REMARK 500 3 HIS A 172 -176.19 -179.64 REMARK 500 4 PRO A 33 -178.26 -69.78 REMARK 500 4 PRO A 42 -171.23 -69.75 REMARK 500 4 SER A 50 80.36 177.83 REMARK 500 4 PRO A 74 -168.89 -69.73 REMARK 500 4 ASP A 81 -65.48 -101.09 REMARK 500 4 PHE A 86 -173.88 -179.74 REMARK 500 4 THR A 102 116.90 -162.95 REMARK 500 4 TYR A 118 139.57 -174.69 REMARK 500 4 SER A 123 149.25 -176.22 REMARK 500 REMARK 500 THIS ENTRY HAS 306 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2Z4F A 26 186 UNP Q16832 DDR2_HUMAN 26 186 SEQADV 2Z4F GLU A 22 UNP Q16832 EXPRESSION TAG SEQADV 2Z4F ALA A 23 UNP Q16832 EXPRESSION TAG SEQADV 2Z4F GLU A 24 UNP Q16832 EXPRESSION TAG SEQADV 2Z4F PHE A 25 UNP Q16832 EXPRESSION TAG SEQADV 2Z4F GLY A 187 UNP Q16832 EXPRESSION TAG SEQADV 2Z4F SER A 188 UNP Q16832 EXPRESSION TAG SEQADV 2Z4F GLY A 189 UNP Q16832 EXPRESSION TAG SEQADV 2Z4F SER A 190 UNP Q16832 EXPRESSION TAG SEQADV 2Z4F ILE A 191 UNP Q16832 EXPRESSION TAG SEQADV 2Z4F GLU A 192 UNP Q16832 EXPRESSION TAG SEQADV 2Z4F GLY A 193 UNP Q16832 EXPRESSION TAG SEQADV 2Z4F ARG A 194 UNP Q16832 EXPRESSION TAG SEQRES 1 A 173 GLU ALA GLU PHE ASN PRO ALA ILE CYS ARG TYR PRO LEU SEQRES 2 A 173 GLY MET SER GLY GLY GLN ILE PRO ASP GLU ASP ILE THR SEQRES 3 A 173 ALA SER SER GLN TRP SER GLU SER THR ALA ALA LYS TYR SEQRES 4 A 173 GLY ARG LEU ASP SER GLU GLU GLY ASP GLY ALA TRP CYS SEQRES 5 A 173 PRO GLU ILE PRO VAL GLU PRO ASP ASP LEU LYS GLU PHE SEQRES 6 A 173 LEU GLN ILE ASP LEU HIS THR LEU HIS PHE ILE THR LEU SEQRES 7 A 173 VAL GLY THR GLN GLY ARG HIS ALA GLY GLY HIS GLY ILE SEQRES 8 A 173 GLU PHE ALA PRO MET TYR LYS ILE ASN TYR SER ARG ASP SEQRES 9 A 173 GLY THR ARG TRP ILE SER TRP ARG ASN ARG HIS GLY LYS SEQRES 10 A 173 GLN VAL LEU ASP GLY ASN SER ASN PRO TYR ASP ILE PHE SEQRES 11 A 173 LEU LYS ASP LEU GLU PRO PRO ILE VAL ALA ARG PHE VAL SEQRES 12 A 173 ARG PHE ILE PRO VAL THR ASP HIS SER MET ASN VAL CYS SEQRES 13 A 173 MET ARG VAL GLU LEU TYR GLY CYS VAL GLY SER GLY SER SEQRES 14 A 173 ILE GLU GLY ARG SHEET 1 A 5 ILE A 46 SER A 49 0 SHEET 2 A 5 PHE A 86 GLY A 104 -1 O GLN A 88 N THR A 47 SHEET 3 A 5 PHE A 151 VAL A 169 -1 O ILE A 159 N ILE A 97 SHEET 4 A 5 MET A 117 SER A 123 -1 N ASN A 121 O ARG A 165 SHEET 5 A 5 VAL A 140 ASP A 142 -1 O LEU A 141 N TYR A 118 SHEET 1 B 5 ILE A 130 SER A 131 0 SHEET 2 B 5 MET A 117 SER A 123 -1 N TYR A 122 O ILE A 130 SHEET 3 B 5 PHE A 151 VAL A 169 -1 O ARG A 165 N ASN A 121 SHEET 4 B 5 PHE A 86 GLY A 104 -1 N ILE A 97 O ILE A 159 SHEET 5 B 5 MET A 178 CYS A 185 -1 O TYR A 183 N LEU A 99 SSBOND 1 CYS A 30 CYS A 185 1555 1555 2.01 SSBOND 2 CYS A 73 CYS A 177 1555 1555 1.95 CISPEP 1 GLU A 156 PRO A 157 1 0.05 CISPEP 2 GLU A 156 PRO A 157 2 -0.03 CISPEP 3 GLU A 156 PRO A 157 3 0.02 CISPEP 4 GLU A 156 PRO A 157 4 0.01 CISPEP 5 GLU A 156 PRO A 157 5 0.08 CISPEP 6 GLU A 156 PRO A 157 6 -0.05 CISPEP 7 GLU A 156 PRO A 157 7 -0.06 CISPEP 8 GLU A 156 PRO A 157 8 0.04 CISPEP 9 GLU A 156 PRO A 157 9 0.02 CISPEP 10 GLU A 156 PRO A 157 10 0.00 CISPEP 11 GLU A 156 PRO A 157 11 -0.01 CISPEP 12 GLU A 156 PRO A 157 12 0.05 CISPEP 13 GLU A 156 PRO A 157 13 -0.09 CISPEP 14 GLU A 156 PRO A 157 14 0.12 CISPEP 15 GLU A 156 PRO A 157 15 0.09 CISPEP 16 GLU A 156 PRO A 157 16 0.01 CISPEP 17 GLU A 156 PRO A 157 17 -0.03 CISPEP 18 GLU A 156 PRO A 157 18 0.02 CISPEP 19 GLU A 156 PRO A 157 19 0.02 CISPEP 20 GLU A 156 PRO A 157 20 -0.01 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