HEADER IMMUNE SYSTEM 29-DEC-06 2OED TITLE GB3 SOLUTION STRUCTURE OBTAINED BY REFINEMENT OF X-RAY STRUCTURE WITH TITLE 2 DIPOLAR COUPLINGS COMPND MOL_ID: 1; COMPND 2 MOLECULE: IMMUNOGLOBULIN G-BINDING PROTEIN G; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: THIRD IGG-BINDING DOMAIN; COMPND 5 SYNONYM: IGG-BINDING PROTEIN G; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS SP. 'GROUP G'; SOURCE 3 ORGANISM_TAXID: 1320; SOURCE 4 GENE: SPG; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: HMS174; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-11A KEYWDS IMMUNE SYSTEM, RESIDUAL DIPOLAR COUPLINGS EXPDTA SOLUTION NMR AUTHOR T.S.ULMER,B.E.RAMIREZ,F.DELAGLIO,A.BAX,A.GRISHAEV REVDAT 3 16-MAR-22 2OED 1 REMARK SEQADV REVDAT 2 24-FEB-09 2OED 1 VERSN REVDAT 1 30-JAN-07 2OED 0 JRNL AUTH T.S.ULMER,B.E.RAMIREZ,F.DELAGLIO,A.BAX JRNL TITL EVALUATION OF BACKBONE PROTON POSITIONS AND DYNAMICS IN A JRNL TITL 2 SMALL PROTEIN BY LIQUID CRYSTAL NMR SPECTROSCOPY JRNL REF J.AM.CHEM.SOC. V. 125 9179 2003 JRNL REFN ISSN 0002-7863 JRNL PMID 15369375 JRNL DOI 10.1021/JA0350684 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.P.DERRICK,D.B.WIGGLEY REMARK 1 TITL THE THIRD IGG-BINDING DOMAIN FROM STREPTOCOCCAL PROTEIN G. REMARK 1 TITL 2 AN ANALYSIS BY X-RAY CRYSTALLOGRAPHY OF THE STRUCTURE ALONE REMARK 1 TITL 3 AND IN A COMPLEX WITH FAB REMARK 1 REF J.MOL.BIOL. V. 243 906 1994 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DYNAMO 2.1 REMARK 3 AUTHORS : DELAGLIO REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: GB3 SOLUTION STRUCTURE IS OBTAINED BY REMARK 3 REFINEMENT OF THE X-RAY STRUCTURE OF GB3 (1IGD) WITH C(ALPHA)-C', REMARK 3 C'-N, C(ALPHA)-H(ALPHA) AND N-H DIPOLAR COUPLINGS MEASURED IN REMARK 3 FIVE ALIGNING MEDIA (BICELLE, PEG, PF1 PHAGE, NEGATIVELY AND REMARK 3 POSITIVELY CHARGED POLYACRYLAMIDE GELS). DIPOLAR COUPLINGS REMARK 3 ORIGINATING ON RESIDUES 10-11, 24-26, 39-41 AND THE N- AND C- REMARK 3 TERMINAL RESIDUES WERE EXCLUDED, RESULTING IN NEAR-IDENTITY WITH REMARK 3 THE X-RAY STRUCTURE FOR THESE RESIDUES. THIS DEPOSITION REMARK 3 CORRESPONDS TO THE REFINED-II STRUCTURE OF THE PRIMARY CITATION REMARK 3 THAT WAS REFINED AGAINST ALL 4 TYPES OF DIPOLAR COUPLINGS IN 5 REMARK 3 MEDIA. THE RELATED DEPOSITIONS 1P7E AND 1P7F CORRESPOND TO THE REMARK 3 REFINED-III AND REFINED-IV STRUCTURES, RESPECTIVELY. THE REMARK 3 DEPOSITED STRUCTURE WAS CALCULATED WITH DYNAMO 2.1 FOLLOWING A REMARK 3 SHORT LOW-TEMPERATURE MOLECULAR DYNAMICS SIMULATED ANNEALING RUN REMARK 3 STARTING FROM THE REGULARIZED COORDINATES OF THE X-RAY STRUCTURE REMARK 3 1IGD USING ATOMIC COORDINATE RESTRAINTS TO THE OVERLAPPING 3- REMARK 3 RESIDUE SEGMENTS OF 1IGD. THE FORCE CONSTANTS FOR THE HN-N-C-CA REMARK 3 IMPROPERS WERE SOFTENED 10-FOLD RELATIVE TO THEIR STANDARD REMARK 3 SETTINGS. SEE THE PRIMARY CITATION AND THE CORRESPONDING REMARK 3 SUPPORTING INFORMATION FILE FOR A DETAILED DESCRIPTION OF THE REMARK 3 REFINEMENT PROCEDURE. THE DEPOSITED RESTRAINTS FILE INCLUDES, IN REMARK 3 ADDITION TO THE DIPOLAR COUPLINGS AND BACKBONE H-BOND DISTANCE REMARK 3 RESTRAINTS (XPLOR/CNS FORMAT), AN XPLOR-NIH SCRIPT DESIGNED TO REMARK 3 MIMIC THE DEPOSITED STRUCTURE, AND THE FORCE FIELD PARAMETER REMARK 3 FILES. A SET OF OVERLAPPING 3-RESIDUE NCS RESTRAINT TERMS IS REMARK 3 USED IN THIS SCRIPT IN PLACE OF THE DYNAMO ATOMIC COORDINATE REMARK 3 RESTRAINTS. REMARK 4 REMARK 4 2OED COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1000041029. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.05 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 25 MM NAH2PO4/NA2HPO4, 0.2 MG/ML REMARK 210 NAN3, 1.5 MM GB3 PROTEIN AND REMARK 210 ALIGNING MEDIA, 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D IPAP [15N,1H]-HSQC; 3D REMARK 210 CT(H)CA(CO)NH; 13C-COUPLED 3D REMARK 210 HNCO; QUANTITATIVE J-CORRELATION REMARK 210 3D TROSY-HNCO REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : DMX; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DYNAMO 2.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 1 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED 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: 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 ASN A 8 70.64 -112.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1P7F RELATED DB: PDB REMARK 900 RELATED ID: 1P7E RELATED DB: PDB REMARK 900 RELATED ID: 1IGD RELATED DB: PDB DBREF 2OED A 3 56 UNP P19909 SPG2_STRSG 444 497 SEQADV 2OED MET A 1 UNP P19909 CLONING ARTIFACT SEQADV 2OED GLN A 2 UNP P19909 CLONING ARTIFACT SEQRES 1 A 56 MET GLN TYR LYS LEU VAL ILE ASN GLY LYS THR LEU LYS SEQRES 2 A 56 GLY GLU THR THR THR LYS ALA VAL ASP ALA GLU THR ALA SEQRES 3 A 56 GLU LYS ALA PHE LYS GLN TYR ALA ASN ASP ASN GLY VAL SEQRES 4 A 56 ASP GLY VAL TRP THR TYR ASP ASP ALA THR LYS THR PHE SEQRES 5 A 56 THR VAL THR GLU HELIX 1 1 ASP A 22 ASN A 37 1 16 SHEET 1 A 4 LYS A 13 LYS A 19 0 SHEET 2 A 4 GLN A 2 ASN A 8 -1 N TYR A 3 O THR A 18 SHEET 3 A 4 THR A 51 THR A 55 1 O VAL A 54 N ASN A 8 SHEET 4 A 4 VAL A 42 ASP A 46 -1 N ASP A 46 O THR A 51 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