HEADER TRANSFERASE 02-APR-05 1Z9I TITLE A STRUCTURAL MODEL FOR THE MEMBRANE-BOUND FORM OF THE JUXTAMEMBRANE TITLE 2 DOMAIN OF THE EPIDERMAL GROWTH FACTOR RECEPTOR CAVEAT 1Z9I CHIRALITY ERROR CHIRAL CENTER CA ARG 6-12,14,16-21,23,24. COMPND MOL_ID: 1; COMPND 2 MOLECULE: EPIDERMAL GROWTH FACTOR RECEPTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 669-721; COMPND 5 SYNONYM: RECEPTOR TYROSINE-PROTEIN KINASE ERBB-1; COMPND 6 EC: 2.7.1.112; 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: EGFR, ERBB1; 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: PGEX-3X KEYWDS JUXTAMEMBRANE STRUCTURE EGFR MICELLE, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 25 AUTHOR K.CHOOWONGKOMON,C.R.CARLIN,F.D.SONNICHSEN REVDAT 4 02-MAR-22 1Z9I 1 REMARK REVDAT 3 24-FEB-09 1Z9I 1 VERSN REVDAT 2 05-JUL-05 1Z9I 1 JRNL REVDAT 1 24-MAY-05 1Z9I 0 JRNL AUTH K.CHOOWONGKOMON,C.R.CARLIN JRNL TITL A STRUCTURAL MODEL FOR THE MEMBRANE-BOUND FORM OF THE JRNL TITL 2 JUXTAMEMBRANE DOMAIN OF THE EPIDERMAL GROWTH FACTOR RECEPTOR JRNL REF J.BIOL.CHEM. V. 280 24043 2005 JRNL REFN ISSN 0021-9258 JRNL PMID 15840573 JRNL DOI 10.1074/JBC.M502698200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR, CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE REMARK 3 -KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU,READ,RICE, REMARK 3 SIMONSON,WARREN (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE STRUCTURES ARE BASED ON A TOTAL OF 1146 RESTRAINTS: 1249 ARE REMARK 3 NOE-DERIVED REMARK 3 DISTANCE CONSTRAINTS, 55 DIHEDRAL ANGLE RESTRAINTS, 27 RDC REMARK 3 RESTRAINTS, 21 DISTANCE RESTRAINTS FROM PARAMAGNETIC PROBE STUDIES. REMARK 4 REMARK 4 1Z9I COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-APR-05. REMARK 100 THE DEPOSITION ID IS D_1000032467. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 5.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1.5 MM JX EGFR IN 90 MM DPC REMARK 210 15N,13C, 90% H20, 10% D20; 1.5 REMARK 210 MM JX EGFR IN 90 MM DPC 15N IN REMARK 210 DRY ACRYLAMIDE GEL THEN COMPRESS REMARK 210 IN THE NMR TUBE, 90% H20, 10% D20 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; HNHA; TROSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, NMRVIEW 5.2.1, CNS 1.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 25 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY AND ALSO USING RESTRAINTS FROM PARAMAGNETIC PROBE REMARK 210 STUDIES. 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 4 ARG A 1 N - CA - CB ANGL. DEV. = -11.2 DEGREES REMARK 500 5 ARG A 1 N - CA - CB ANGL. DEV. = 11.7 DEGREES REMARK 500 6 ARG A 1 N - CA - CB ANGL. DEV. = -83.6 DEGREES REMARK 500 7 ARG A 1 N - CA - CB ANGL. DEV. = 20.1 DEGREES REMARK 500 8 ARG A 1 N - CA - CB ANGL. DEV. = -73.2 DEGREES REMARK 500 9 ARG A 1 N - CA - CB ANGL. DEV. = 24.4 DEGREES REMARK 500 10 ARG A 1 N - CA - CB ANGL. DEV. = 23.1 DEGREES REMARK 500 11 ARG A 1 N - CA - CB ANGL. DEV. = -84.6 DEGREES REMARK 500 12 ARG A 1 N - CA - CB ANGL. DEV. = 110.2 DEGREES REMARK 500 14 ARG A 1 N - CA - CB ANGL. DEV. = -37.7 DEGREES REMARK 500 16 ARG A 1 N - CA - CB ANGL. DEV. = 100.0 DEGREES REMARK 500 17 ARG A 1 N - CA - CB ANGL. DEV. = -58.2 DEGREES REMARK 500 18 ARG A 1 N - CA - CB ANGL. DEV. = -52.3 DEGREES REMARK 500 19 ARG A 1 N - CA - CB ANGL. DEV. = -61.2 DEGREES REMARK 500 20 ARG A 1 N - CA - CB ANGL. DEV. = 105.7 DEGREES REMARK 500 21 ARG A 1 N - CA - CB ANGL. DEV. = -13.3 DEGREES REMARK 500 22 ARG A 1 N - CA - CB ANGL. DEV. = 14.8 DEGREES REMARK 500 23 ARG A 1 N - CA - CB ANGL. DEV. = 25.4 DEGREES REMARK 500 24 ARG A 1 N - CA - CB ANGL. DEV. = -28.7 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 2 -56.90 -158.69 REMARK 500 1 ARG A 3 -168.16 -111.93 REMARK 500 1 LEU A 20 -78.16 -152.85 REMARK 500 1 GLU A 22 -53.72 177.58 REMARK 500 1 ALA A 30 163.61 177.98 REMARK 500 2 ARG A 2 -63.78 -105.34 REMARK 500 2 ILE A 5 -57.62 -135.45 REMARK 500 2 VAL A 6 92.28 -59.46 REMARK 500 2 ARG A 7 -72.88 -126.37 REMARK 500 2 LEU A 11 -9.04 -59.65 REMARK 500 2 GLU A 19 21.16 48.75 REMARK 500 2 GLU A 22 68.92 66.63 REMARK 500 2 SER A 27 -79.22 -67.07 REMARK 500 2 GLU A 29 -59.18 72.22 REMARK 500 3 ARG A 3 -168.01 -104.73 REMARK 500 3 LEU A 20 -72.37 -134.63 REMARK 500 3 GLU A 22 -51.50 177.45 REMARK 500 3 SER A 27 -72.66 -91.84 REMARK 500 3 ALA A 30 147.49 -176.10 REMARK 500 4 HIS A 4 92.00 53.41 REMARK 500 4 GLU A 22 -58.92 -177.77 REMARK 500 4 LEU A 24 -42.65 -145.93 REMARK 500 4 THR A 25 100.40 69.07 REMARK 500 4 THR A 42 11.70 -151.09 REMARK 500 5 HIS A 4 -78.91 63.71 REMARK 500 5 ILE A 5 -61.58 73.64 REMARK 500 5 VAL A 21 -50.40 -145.39 REMARK 500 5 LEU A 24 -67.76 -100.33 REMARK 500 5 THR A 25 95.12 49.27 REMARK 500 5 PRO A 26 45.93 -85.12 REMARK 500 5 GLU A 29 39.12 -96.69 REMARK 500 5 THR A 42 11.79 -146.53 REMARK 500 6 ARG A 2 162.90 60.31 REMARK 500 6 HIS A 4 31.14 -99.01 REMARK 500 6 ILE A 5 -60.43 75.69 REMARK 500 6 GLU A 19 -0.44 75.54 REMARK 500 6 LEU A 20 -72.70 -145.69 REMARK 500 6 VAL A 21 -63.31 -154.30 REMARK 500 6 GLU A 22 68.13 -167.18 REMARK 500 6 SER A 27 -78.49 -77.25 REMARK 500 6 GLU A 29 -57.36 75.60 REMARK 500 7 ARG A 2 -73.26 -92.18 REMARK 500 7 HIS A 4 79.58 65.61 REMARK 500 7 ARG A 7 38.25 -96.94 REMARK 500 7 GLU A 19 47.50 -151.29 REMARK 500 7 LEU A 20 -77.98 -144.46 REMARK 500 7 GLU A 22 -55.22 179.68 REMARK 500 7 SER A 27 -62.41 -122.79 REMARK 500 7 GLU A 29 35.00 -98.36 REMARK 500 8 ARG A 2 -166.95 -105.33 REMARK 500 REMARK 500 THIS ENTRY HAS 187 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1Z9I A 1 53 UNP P00533 EGFR_HUMAN 669 721 SEQRES 1 A 53 ARG ARG ARG HIS ILE VAL ARG LYS ARG THR LEU ARG ARG SEQRES 2 A 53 LEU LEU GLN GLU ARG GLU LEU VAL GLU PRO LEU THR PRO SEQRES 3 A 53 SER GLY GLU ALA PRO ASN GLN ALA LEU LEU ARG ILE LEU SEQRES 4 A 53 LYS GLU THR GLU PHE LYS LYS ILE LYS VAL LEU GLY SER SEQRES 5 A 53 GLY HELIX 1 1 ARG A 9 GLU A 17 1 9 HELIX 2 2 ARG A 18 LEU A 20 5 3 HELIX 3 3 ALA A 30 THR A 42 1 13 HELIX 4 4 THR A 42 GLY A 51 1 10 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