PDB Short entry for 2H7T HEADER PROTEIN BINDING 03-JUN-06 2H7T TITLE SOLUTION STRUCTURE OF THE C-TERMINAL DOMAIN OF INSULIN-LIKE GROWTH TITLE 2 FACTOR BINDING PROTEIN 2 (IGFBP-2) COMPND MOL_ID: 1; COMPND 2 MOLECULE: INSULIN-LIKE GROWTH FACTOR-BINDING PROTEIN 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN; COMPND 5 SYNONYM: IGFBP-2, IBP- 2, IGF-BINDING PROTEIN 2; 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: IGFBP2, BP2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET32A KEYWDS THYROGLOBULIN TYPE 1 FOLD, PROTEIN BINDING EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Z.KUANG REVDAT 3 09-MAR-22 2H7T 1 REMARK SEQADV REVDAT 2 24-FEB-09 2H7T 1 VERSN REVDAT 1 24-APR-07 2H7T 0 JRNL AUTH Z.KUANG,S.YAO,D.W.KEIZER,C.C.WANG,L.A.BACH,B.E.FORBES, JRNL AUTH 2 J.C.WALLACE,R.S.NORTON JRNL TITL STRUCTURE, DYNAMICS AND HEPARIN BINDING OF THE C-TERMINAL JRNL TITL 2 DOMAIN OF INSULIN-LIKE GROWTH FACTOR-BINDING PROTEIN-2 JRNL TITL 3 (IGFBP-2) JRNL REF J.MOL.BIOL. V. 364 690 2006 JRNL REFN ISSN 0022-2836 JRNL PMID 17020769 JRNL DOI 10.1016/J.JMB.2006.09.006 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, OPALP REMARK 3 AUTHORS : BRUKER BIOSPIN (XWINNMR), KORADI (OPALP) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2H7T COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-JUN-06. REMARK 100 THE DEPOSITION ID IS D_1000038037. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 0.01M REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.8MM C-BP-2 U-15N; 10MM NA REMARK 210 ACETATE, 95% H2O, 5% D2O; 0.5MM REMARK 210 C-BP-2 U-15N, 13C; 10MM NA REMARK 210 ACETATE, 95% H2O, 5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; HNHA; REMARK 210 3D_13C-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XEASY 1.3, CYANA 1.0.3 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: 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: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 2 ARG A 201 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 5 CYS A 236 CA - CB - SG ANGL. DEV. = 6.8 DEGREES REMARK 500 18 CYS A 247 CA - CB - SG ANGL. DEV. = 7.0 DEGREES REMARK 500 19 TYR A 231 CB - CG - CD2 ANGL. DEV. = -3.7 DEGREES 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 ARG A 188 -64.32 -139.78 REMARK 500 1 GLU A 210 50.82 -146.43 REMARK 500 1 ARG A 211 -49.66 -140.82 REMARK 500 1 GLU A 215 -31.08 -152.07 REMARK 500 1 LEU A 217 25.79 -164.93 REMARK 500 1 SER A 219 68.93 -160.77 REMARK 500 1 SER A 239 -67.36 -141.75 REMARK 500 1 LEU A 257 46.78 -96.06 REMARK 500 1 GLN A 259 9.73 -66.58 REMARK 500 1 HIS A 271 -44.33 -152.01 REMARK 500 1 HIS A 284 -39.68 -149.01 REMARK 500 1 THR A 285 100.36 -59.34 REMARK 500 2 GLU A 210 -57.56 -161.12 REMARK 500 2 LEU A 217 49.46 -103.93 REMARK 500 2 SER A 239 -39.68 -142.00 REMARK 500 2 LEU A 240 -71.89 -67.54 REMARK 500 2 ASN A 241 -28.37 -155.22 REMARK 500 2 LYS A 256 33.84 -80.41 REMARK 500 2 LEU A 257 44.64 -156.45 REMARK 500 2 GLU A 279 85.00 -67.19 REMARK 500 2 HIS A 284 61.43 -111.17 REMARK 500 3 PRO A 186 -86.41 -73.00 REMARK 500 3 GLU A 210 -80.24 -152.07 REMARK 500 3 GLU A 215 -53.54 -145.42 REMARK 500 3 HIS A 216 24.91 -148.32 REMARK 500 3 SER A 239 -73.47 -69.14 REMARK 500 3 LEU A 240 -39.69 179.95 REMARK 500 3 ALA A 261 150.35 -39.76 REMARK 500 3 PHE A 273 50.50 -114.78 REMARK 500 3 GLN A 277 -79.08 -169.95 REMARK 500 3 GLN A 278 91.15 -163.17 REMARK 500 3 HIS A 284 -79.74 -154.33 REMARK 500 4 ARG A 188 -74.60 -131.27 REMARK 500 4 MET A 205 84.54 -62.06 REMARK 500 4 ARG A 206 -45.45 -146.41 REMARK 500 4 SER A 239 -85.72 -123.33 REMARK 500 4 ASN A 251 -38.21 -140.78 REMARK 500 4 LEU A 257 -89.08 -122.23 REMARK 500 4 HIS A 271 -75.44 -148.24 REMARK 500 4 MET A 288 -137.57 -81.25 REMARK 500 5 ARG A 188 -40.05 -138.99 REMARK 500 5 ARG A 211 -59.90 179.35 REMARK 500 5 HIS A 216 -69.63 -132.19 REMARK 500 5 SER A 239 -56.36 -156.29 REMARK 500 5 ASN A 241 105.03 -59.60 REMARK 500 5 GLN A 259 -7.68 -142.80 REMARK 500 5 PRO A 262 -178.59 -62.63 REMARK 500 5 PRO A 268 40.07 -66.09 REMARK 500 5 HIS A 271 -56.50 -145.68 REMARK 500 5 ASN A 275 76.91 -153.16 REMARK 500 REMARK 500 THIS ENTRY HAS 260 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 TYR A 274 ASN A 275 1 148.19 REMARK 500 LEU A 214 GLU A 215 3 148.89 REMARK 500 ASN A 251 PRO A 252 4 144.58 REMARK 500 GLY A 183 PRO A 184 6 -148.44 REMARK 500 MET A 288 GLN A 289 14 141.51 REMARK 500 TYR A 274 ASN A 275 18 148.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 211 0.11 SIDE CHAIN REMARK 500 1 TYR A 218 0.07 SIDE CHAIN REMARK 500 2 TYR A 218 0.12 SIDE CHAIN REMARK 500 2 ARG A 244 0.11 SIDE CHAIN REMARK 500 3 ARG A 211 0.08 SIDE CHAIN REMARK 500 3 ARG A 265 0.10 SIDE CHAIN REMARK 500 3 ARG A 287 0.10 SIDE CHAIN REMARK 500 4 ARG A 244 0.09 SIDE CHAIN REMARK 500 4 ARG A 265 0.09 SIDE CHAIN REMARK 500 6 ARG A 206 0.08 SIDE CHAIN REMARK 500 6 TYR A 218 0.08 SIDE CHAIN REMARK 500 8 TYR A 274 0.10 SIDE CHAIN REMARK 500 8 ARG A 287 0.10 SIDE CHAIN REMARK 500 9 ARG A 201 0.17 SIDE CHAIN REMARK 500 10 ARG A 244 0.09 SIDE CHAIN REMARK 500 11 TYR A 218 0.09 SIDE CHAIN REMARK 500 11 TYR A 231 0.07 SIDE CHAIN REMARK 500 12 ARG A 244 0.08 SIDE CHAIN REMARK 500 13 ARG A 188 0.08 SIDE CHAIN REMARK 500 13 ARG A 206 0.08 SIDE CHAIN REMARK 500 13 TYR A 218 0.07 SIDE CHAIN REMARK 500 13 TYR A 231 0.07 SIDE CHAIN REMARK 500 13 TYR A 274 0.10 SIDE CHAIN REMARK 500 14 ARG A 188 0.13 SIDE CHAIN REMARK 500 15 ARG A 188 0.08 SIDE CHAIN REMARK 500 15 ARG A 211 0.09 SIDE CHAIN REMARK 500 16 TYR A 218 0.10 SIDE CHAIN REMARK 500 16 ARG A 287 0.08 SIDE CHAIN REMARK 500 18 ARG A 201 0.11 SIDE CHAIN REMARK 500 19 ARG A 265 0.10 SIDE CHAIN REMARK 500 20 TYR A 218 0.09 SIDE CHAIN REMARK 500 20 TYR A 231 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 2H7T A 184 289 UNP P18065 IBP2_HUMAN 223 328 SEQADV 2H7T GLY A 183 UNP P18065 CLONING ARTIFACT SEQRES 1 A 107 GLY PRO PRO PRO ALA ARG THR PRO CYS GLN GLN GLU LEU SEQRES 2 A 107 ASP GLN VAL LEU GLU ARG ILE SER THR MET ARG LEU PRO SEQRES 3 A 107 ASP GLU ARG GLY PRO LEU GLU HIS LEU TYR SER LEU HIS SEQRES 4 A 107 ILE PRO ASN CYS ASP LYS HIS GLY LEU TYR ASN LEU LYS SEQRES 5 A 107 GLN CYS LYS MET SER LEU ASN GLY GLN ARG GLY GLU CYS SEQRES 6 A 107 TRP CYS VAL ASN PRO ASN THR GLY LYS LEU ILE GLN GLY SEQRES 7 A 107 ALA PRO THR ILE ARG GLY ASP PRO GLU CYS HIS LEU PHE SEQRES 8 A 107 TYR ASN GLU GLN GLN GLU ALA ARG GLY VAL HIS THR GLN SEQRES 9 A 107 ARG MET GLN HELIX 1 1 THR A 189 MET A 205 1 17 SHEET 1 A 2 LYS A 234 LYS A 237 0 SHEET 2 A 2 GLU A 246 CYS A 249 -1 O GLU A 246 N LYS A 237 SSBOND 1 CYS A 191 CYS A 225 1555 1555 2.03 SSBOND 2 CYS A 236 CYS A 247 1555 1555 2.04 SSBOND 3 CYS A 249 CYS A 270 1555 1555 2.04 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