10 20 30 40 50 60 70 80 1CS9 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER DNA BINDING PROTEIN 18-AUG-99 1CS9
TITLE SOLUTION STRUCTURE OF CGGIRGERA IN CONTACT WITH THE TITLE 2 MONOCLONAL ANTIBODY MAB 4X11, NMR, 7 STRUCTURES
COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE H3 PEPTIDE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL REGION 130-135; COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. THE SOURCE 4 PEPTIDE CORRESPONDS TO THE IRGERA SEQUENCE PRESENT IN THE SOURCE 5 C-TERMINAL REGION 130-135 OF HISTONE H3 BOUND TO THE MAB SOURCE 6 4X11 MONOCLONAL ANTIBODY (IGG1). THE SEQUENCE CGG WAS SOURCE 7 ADDED TO THE N- TERMINUS OF THE IRGERA SEQUENCE AS A SOURCE 8 LINKER TO THE DEXTRAN MATRIX IN BIACORE EXPERIMENTS VIA SOURCE 9 THE CYS THIOL GROUP.
KEYWDS SYNTHETIC PEPTIDE, TR-NOE, ANTIGEN-ANTIBODY COMPLEX, DNA KEYWDS 2 BINDING PROTEIN
EXPDTA SOLUTION NMR
NUMMDL 7
AUTHOR A.PHAN CHAN DU,M.C.PETIT,G.GUICHARD,J.P.BRIAND,S.MULLER, AUTHOR 2 M.T.CUNG
REVDAT 5 24-FEB-09 1CS9 1 VERSN REVDAT 4 01-APR-03 1CS9 1 JRNL REVDAT 3 13-JUN-01 1CS9 1 JRNL REVDAT 2 03-NOV-99 1CS9 3 ATOM JRNL REMARK REVDAT 1 02-SEP-99 1CS9 0
JRNL AUTH A.PHAN-CHAN-DU,M.C.PETIT,G.GUICHARD,J.P.BRIAND, JRNL AUTH 2 S.MULLER,M.T.CUNG JRNL TITL STRUCTURE OF ANTIBODY-BOUND PEPTIDES AND JRNL TITL 2 RETRO-INVERSO ANALOGUES. A TRANSFERRED NUCLEAR JRNL TITL 3 OVERHAUSER EFFECT SPECTROSCOPY AND MOLECULAR JRNL TITL 4 DYNAMICS APPROACH. JRNL REF BIOCHEMISTRY V. 40 5720 2001 JRNL REFN ISSN 0006-2960 JRNL PMID 11341837 JRNL DOI 10.1021/BI001151H
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISCOVER 3 REMARK 3 AUTHORS : MOLECULAR SIMULATIONS INC. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: ENERGY MINIMISATION. A DISTANT REMARK 3 DEPENDENT DIELECTRIC CONSTANT EQUAL TO 4R WAS APPLIED. THE NET REMARK 3 ELECTRIC CHARGES WERE DECREASED, WHILE THOSE OF THE N AND C REMARK 3 TERMINAL CHARGED GROUPS WERE NEGLECTED. IN THE PDB, NH3+ IS REMARK 3 INCLUDED IN THE RESIDUE CYS, AND COO- IS INCLUDED IN THE REMARK 3 RESIDUE ALA. THE RESIDUE GLU HAS MISSING ATOMS HE2 IN ALL REMARK 3 STRUCTURES BECAUSE IN DISCOVER, THIS RESIDUE IS MODELLED AS A REMARK 3 CHARGED GROUP(WE HAVE COO- AND NOT COOH).
REMARK 4 REMARK 4 1CS9 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-AUG-99. REMARK 100 THE RCSB ID CODE IS RCSB009525.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 277 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 0.1M PHOSPHATE REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 5 MM PEPTIDE, 0.1MM MAB; 100 REMARK 210 MM PHOSPHATE BUFFER CONTAINING REMARK 210 0.02% SODIUM AZIDE REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : TOCSY, NOESY, COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 400 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DYANA 1.4, DISCOVER 3 REMARK 210 METHOD USED : ENERGY MINIMIZATION MOLECULAR REMARK 210 DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 7 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 7 REMARK 210 REMARK 210 REMARK: THE PEPTIDE/MAB MOLAR RATIO WAS ADJUSTED TO 50/1 (I.E. REMARK 210 5MM OF PEPTIDE AND 0.1MM OF MAB)
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 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 5 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 2 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 3 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 3 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 4 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 4 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 5 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 5 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 6 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 6 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 7 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 7 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.5 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 5 -97.81 -154.01 REMARK 500 3 GLU A 7 -96.90 -158.65 REMARK 500 3 ARG A 8 65.11 -160.87 REMARK 500 4 ARG A 5 85.41 -158.30 REMARK 500 4 GLU A 7 119.21 -163.13 REMARK 500 4 ARG A 8 89.73 -156.61 REMARK 500 5 ARG A 5 -81.59 -157.65 REMARK 500 5 GLU A 7 -84.79 -157.47 REMARK 500 5 ARG A 8 -66.04 -157.62 REMARK 500 6 GLU A 7 83.01 -155.53 REMARK 500 7 GLU A 7 111.28 -160.49 REMARK 500 7 ARG A 8 85.82 -151.36 REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CT6 RELATED DB: PDB
DBREF 1CS9 A 4 9 UNP P16106 H31_HUMAN 130 135
SEQRES 1 A 9 CYS GLY GLY ILE ARG GLY GLU ARG ALA
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