HEADER DE NOVO PROTEIN/LIGAND BINDING PROTEIN 31-AUG-06 2I7U TITLE STRUCTURAL AND DYNAMICAL ANALYSIS OF A FOUR-ALPHA-HELIX BUNDLE WITH TITLE 2 DESIGNED ANESTHETIC BINDING POCKETS COMPND MOL_ID: 1; COMPND 2 MOLECULE: FOUR-ALPHA-HELIX BUNDLE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS PROTEIN IS A DESIGNED WATER-SOLUBLE VARIANT OF SOURCE 4 THE TRANSMEMBRANE DOMAINS OF ION CHANNEL PROTEINS. IT CONTAINS A SOURCE 5 BINDING POCKET FOR ANESTHETICS. KEYWDS ALPHA HELIX, HOMO DIMER, FOUR-ALPHA-HELIX BUNDLE, ANESTHETIC BINDING, KEYWDS 2 DE NOVO PROTEIN-LIGAND BINDING PROTEIN COMPLEX EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR D.MA,N.R.BRANDON,T.CUI,V.BONDARENKO,C.CANLAS,J.S.JOHANSSON,P.TANG, AUTHOR 2 Y.XU REVDAT 6 29-MAY-24 2I7U 1 REMARK REVDAT 5 09-MAR-22 2I7U 1 REMARK REVDAT 4 24-FEB-09 2I7U 1 VERSN REVDAT 3 27-MAY-08 2I7U 1 JRNL REVDAT 2 25-MAR-08 2I7U 1 JRNL REVDAT 1 11-SEP-07 2I7U 0 JRNL AUTH D.MA,N.R.BRANDON,T.CUI,V.BONDARENKO,C.CANLAS,J.S.JOHANSSON, JRNL AUTH 2 P.TANG,Y.XU JRNL TITL FOUR-ALPHA-HELIX BUNDLE WITH DESIGNED ANESTHETIC BINDING JRNL TITL 2 POCKETS. PART I: STRUCTURAL AND DYNAMICAL ANALYSES. JRNL REF BIOPHYS.J. V. 94 4454 2008 JRNL REFN ISSN 0006-3495 JRNL PMID 18310240 JRNL DOI 10.1529/BIOPHYSJ.107.117838 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 1.3, CYANA 2.1 REMARK 3 AUTHORS : BRUKER (TOPSPIN), GUNTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 1118 RESTRAINTS RELATIVE TO THE DIMER, INCLUDING 858 NOE-DERIVED REMARK 3 DISTANCE CONSTRAINTS, 180 DIHEDRAL ANGLE RESTRAINTS AND 80 REMARK 3 DISTANCE RESTRAINTS FROM HYDROGEN BONDS. REMARK 4 REMARK 4 2I7U COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1000039246. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 4.5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5MM 4HB U-15N,13C, 90% H2O, REMARK 210 10% D2O, 0.2MM DSS REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; HNCO; CBCACONH; REMARK 210 HNCACB; 2D NOESY; HSQC; HNCOCA; REMARK 210 HBHA(CO)NH; HBHANH; R1 REMARK 210 RELAXATION; R2 RELAXATION; REMARK 210 HETERONUCLEAR NOE REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 700 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2.4 REV 2006.095.11.35, REMARK 210 SPARKY 3.110, CYANA 2.1, REMARK 210 AUTOASSIGN 2.2.0, MONTE 2.02 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING STANDARD 3D EXPERIMENTS REMARK 210 AND THE PROGRAM CYANA 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 1 LYS B 2 162.27 63.15 REMARK 500 1 LYS B 3 -46.12 -149.92 REMARK 500 1 LEU B 4 -37.84 -179.07 REMARK 500 1 ARG B 58 -74.89 -77.06 REMARK 500 2 ARG A 58 -74.78 -81.63 REMARK 500 2 LYS A 60 171.60 63.19 REMARK 500 2 LEU B 4 -39.38 -174.52 REMARK 500 2 LYS B 60 116.71 -176.70 REMARK 500 3 LYS A 3 -42.22 -130.51 REMARK 500 3 ARG A 58 -74.79 -87.02 REMARK 500 3 LYS B 60 103.54 -179.07 REMARK 500 4 LYS A 60 162.32 63.09 REMARK 500 4 LEU B 4 -68.62 71.15 REMARK 500 5 LEU A 4 -67.88 71.45 REMARK 500 5 ARG A 58 -74.78 -75.77 REMARK 500 5 LYS A 60 82.59 56.45 REMARK 500 5 LYS B 2 162.10 63.16 REMARK 500 5 LYS B 3 -42.72 -140.17 REMARK 500 5 LYS B 61 -70.75 -98.32 REMARK 500 6 LEU A 4 -68.57 71.16 REMARK 500 6 ARG A 58 -76.92 -71.26 REMARK 500 6 LYS A 60 -169.79 51.87 REMARK 500 6 LEU B 4 -55.31 -143.90 REMARK 500 6 ARG B 58 -74.66 -50.98 REMARK 500 6 LYS B 60 47.25 -161.99 REMARK 500 7 LYS A 2 123.74 66.07 REMARK 500 7 LEU A 4 -36.67 -178.75 REMARK 500 7 ARG A 58 -72.06 -98.77 REMARK 500 7 LEU A 59 47.60 -89.04 REMARK 500 7 LYS A 60 34.46 177.90 REMARK 500 7 LEU B 4 -68.08 71.47 REMARK 500 8 LYS A 2 -39.50 -167.76 REMARK 500 8 ARG A 58 -74.76 -76.52 REMARK 500 8 LYS A 60 86.68 57.51 REMARK 500 8 LYS B 60 -74.54 -68.56 REMARK 500 9 LYS A 2 -163.28 44.51 REMARK 500 9 LYS A 61 109.23 -174.40 REMARK 500 9 LYS B 60 -177.13 56.17 REMARK 500 9 LYS B 61 26.36 -154.16 REMARK 500 10 LYS A 60 132.84 -179.25 REMARK 500 10 LYS B 60 -172.30 53.58 REMARK 500 REMARK 500 REMARK: NULL DBREF 2I7U A 1 62 PDB 2I7U 2I7U 1 62 DBREF 2I7U B 1 62 PDB 2I7U 2I7U 1 62 SEQRES 1 A 62 MET LYS LYS LEU ARG GLU GLU ALA ALA LYS LEU PHE GLU SEQRES 2 A 62 GLU TRP LYS LYS LEU ALA GLU GLU ALA ALA LYS LEU LEU SEQRES 3 A 62 GLU GLY GLY GLY GLY GLY GLY GLY GLY GLU LEU MET LYS SEQRES 4 A 62 LEU CYS GLU GLU ALA ALA LYS LYS ALA GLU GLU LEU PHE SEQRES 5 A 62 LYS LEU ALA GLU GLU ARG LEU LYS LYS LEU SEQRES 1 B 62 MET LYS LYS LEU ARG GLU GLU ALA ALA LYS LEU PHE GLU SEQRES 2 B 62 GLU TRP LYS LYS LEU ALA GLU GLU ALA ALA LYS LEU LEU SEQRES 3 B 62 GLU GLY GLY GLY GLY GLY GLY GLY GLY GLU LEU MET LYS SEQRES 4 B 62 LEU CYS GLU GLU ALA ALA LYS LYS ALA GLU GLU LEU PHE SEQRES 5 B 62 LYS LEU ALA GLU GLU ARG LEU LYS LYS LEU HELIX 1 1 LYS A 3 GLY A 28 1 26 HELIX 2 2 GLY A 35 LYS A 60 1 26 HELIX 3 3 LEU B 4 GLY B 28 1 25 HELIX 4 4 GLU B 36 LYS B 60 1 25 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