PDB Short entry for 1IIJ HEADER SIGNALING PROTEIN 23-APR-01 1IIJ TITLE SOLUTION STRUCTURE OF THE NEU/ERBB-2 MEMBRANE SPANNING SEGMENT COMPND MOL_ID: 1; COMPND 2 MOLECULE: ERBB-2 RECEPTOR PROTEIN-TYROSINE KINASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: TRANSMEMBRANE DOMAIN, RESIDUES 650-684; COMPND 5 EC: 2.7.1.112; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS PEPTIDE WAS CHEMICALLY SYNTHESIZED. THIS SOURCE 4 SEQUENCE OCCURS NATURALLY IN RATTUS NORVEGICUS (RAT). KEYWDS ALPHA-HELIX-PI-BULGE-ALPHA-HELIX, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 5 AUTHOR M.GOETZ,C.CARLOTTI,F.BONTEMS,E.J.DUFOURC REVDAT 5 23-FEB-22 1IIJ 1 REMARK REVDAT 4 24-FEB-09 1IIJ 1 VERSN REVDAT 3 24-FEB-04 1IIJ 1 CRYST1 REVDAT 2 01-APR-03 1IIJ 1 JRNL REVDAT 1 27-JUN-01 1IIJ 0 JRNL AUTH M.GOETZ,C.CARLOTTI,F.BONTEMS,E.J.DUFOURC JRNL TITL EVIDENCE FOR AN ALPHA-HELIX --> PI-BULGE HELICITY MODULATION JRNL TITL 2 FOR THE NEU/ERBB-2 MEMBRANE-SPANNING SEGMENT. A 1H NMR AND JRNL TITL 3 CIRCULAR DICHROISM STUDY. JRNL REF BIOCHEMISTRY V. 40 6534 2001 JRNL REFN ISSN 0006-2960 JRNL PMID 11371217 JRNL DOI 10.1021/BI0027938 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DYANA, DISCOVER VER. 97.0 REMARK 3 AUTHORS : MOLECULAR SIMULATIONS INC. (DISCOVER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURES BASED 385 NOE RESTRAINTS, REMARK 3 111 DIHEDRAL ANGLES REMARK 4 REMARK 4 1IIJ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-APR-01. REMARK 100 THE DEPOSITION ID IS D_1000013300. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : NULL REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : ATMOSPHERIC ATM REMARK 210 SAMPLE CONTENTS : 1.5 MM NEU-TM35 PEPTIDE REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : DQF-COSY; 2D NOESY; HOHAHA REMARK 210 SPECTROMETER FIELD STRENGTH : 400 MHZ; 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DISCOVER VER. 97.0, XWINNMR REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 5 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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 LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 1 GLU A 1 CD GLU A 1 OE2 0.108 REMARK 500 1 ARG A 35 C ARG A 35 OXT 0.137 REMARK 500 2 GLU A 1 CD GLU A 1 OE2 0.107 REMARK 500 2 ARG A 35 C ARG A 35 OXT 0.134 REMARK 500 3 GLU A 1 CD GLU A 1 OE2 0.107 REMARK 500 3 ARG A 35 C ARG A 35 OXT 0.135 REMARK 500 4 GLU A 1 CD GLU A 1 OE2 0.107 REMARK 500 4 ARG A 35 C ARG A 35 OXT 0.137 REMARK 500 5 GLU A 1 CD GLU A 1 OE2 0.108 REMARK 500 5 ARG A 35 C ARG A 35 OXT 0.137 REMARK 500 REMARK 500 REMARK: NULL 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 1 ARG A 3 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 1 ARG A 3 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 1 ARG A 33 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 1 ARG A 33 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 1 ARG A 34 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 1 ARG A 35 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 ARG A 35 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 2 ARG A 3 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 2 ARG A 3 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 2 ARG A 33 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 2 ARG A 34 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 2 ARG A 35 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 2 ARG A 35 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 3 ARG A 3 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 3 ARG A 3 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 3 ARG A 33 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 3 ARG A 33 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 3 ARG A 34 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 3 ARG A 35 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 4 ARG A 3 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 4 ARG A 3 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 4 ARG A 33 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 4 ARG A 34 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 4 ARG A 34 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 4 ARG A 35 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 5 ARG A 3 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 5 ARG A 3 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 5 ARG A 33 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 5 ARG A 34 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 5 ARG A 35 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 5 ARG A 35 NE - CZ - NH2 ANGL. DEV. = -3.1 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 2 ARG A 34 76.21 -106.71 REMARK 500 3 SER A 5 -64.52 -146.32 REMARK 500 3 LEU A 23 -61.36 -93.01 REMARK 500 4 VAL A 26 -73.91 -76.00 REMARK 500 REMARK 500 REMARK: NULL DBREF 1IIJ A 1 35 UNP P06494 ERBB2_RAT 647 681 SEQRES 1 A 35 GLU GLN ARG ALA SER PRO VAL THR PHE ILE ILE ALA THR SEQRES 2 A 35 VAL VAL GLY VAL LEU LEU PHE LEU ILE LEU VAL VAL VAL SEQRES 3 A 35 VAL GLY ILE LEU ILE LYS ARG ARG ARG HELIX 1 1 ARG A 3 VAL A 24 1 22 HELIX 2 2 GLY A 28 ARG A 34 1 7 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 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