10 20 30 40 50 60 70 80 2JOB - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER LIPID BINDING PROTEIN 02-MAR-07 2JOB
TITLE SOLUTION STRUCTURE OF AN ANTILIPOPOLYSACCHARIDE FACTOR FROM TITLE 2 SHRIMP AND ITS POSSIBLE LIPID A BINDING SITE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: ANTILIPOPOLYSACCHARIDE FACTOR; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PENAEUS MONODON; SOURCE 3 ORGANISM_COMMON: BLACK TIGER SHRIMP; SOURCE 4 ORGANISM_TAXID: 6687; SOURCE 5 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922
KEYWDS ALF, LIPID A BINDING PROTEIN, ENDOTOXIN, LIPID BINDING KEYWDS 2 PROTEIN
EXPDTA SOLUTION NMR
NUMMDL 15
AUTHOR Y.YANG,H.BOZE,P.CHEMARDIN,A.PADILLA,G.MOULIN,A.TASSANAKAJON, AUTHOR 2 M.PUGNIERE,F.ROQUET,Y.GUEGUEN,E.BACHERE,A.AUMELAS
REVDAT 2 27-JAN-09 2JOB 1 JRNL VERSN REVDAT 1 11-MAR-08 2JOB 0
JRNL AUTH Y.YANG,H.BOZE,P.CHEMARDIN,A.PADILLA,G.MOULIN, JRNL AUTH 2 A.TASSANAKAJON,M.PUGNIERE,F.ROQUET, JRNL AUTH 3 D.DESTOUMIEUX-GARZON,Y.GUEGUEN,E.BACHERE,A.AUMELAS JRNL TITL NMR STRUCTURE OF RALF-PM3, AN JRNL TITL 2 ANTI-LIPOPOLYSACCHARIDE FACTOR FROM SHRIMP: MODEL JRNL TITL 3 OF THE POSSIBLE LIPID A-BINDING SITE JRNL REF BIOPOLYMERS V. 91 207 2009 JRNL REFN ISSN 0006-3525 JRNL PMID 19107926 JRNL DOI 10.1002/BIP.21119
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2JOB COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAR-07. REMARK 100 THE RCSB ID CODE IS RCSB100083.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 305 REMARK 210 PH : 6.9 REMARK 210 IONIC STRENGTH : NO SALT REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-99% 15N] ALF, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D DQF-COSY, 2D 1H-1H TOCSY, REMARK 210 2D 1H-1H NOESY, 2D 1H-15N REMARK 210 HSQC, 3D 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR, GIFA, X-PLOR REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 60 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 15 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 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 VAL A 4 -71.98 62.61 REMARK 500 1 GLU A 25 36.48 -158.64 REMARK 500 1 PHE A 45 41.53 -155.34 REMARK 500 1 THR A 67 -177.31 -174.60 REMARK 500 1 LEU A 90 -56.92 -122.31 REMARK 500 2 TYR A 3 -62.57 -104.93 REMARK 500 2 GLU A 25 33.81 -159.70 REMARK 500 2 PHE A 45 42.37 -162.30 REMARK 500 3 ALA A 2 75.30 53.97 REMARK 500 3 GLN A 5 -173.28 58.65 REMARK 500 3 GLU A 25 34.14 -156.77 REMARK 500 3 PHE A 45 37.80 -155.64 REMARK 500 4 TYR A 3 -53.72 -159.25 REMARK 500 4 GLU A 25 37.19 -164.67 REMARK 500 4 PHE A 45 39.34 -156.35 REMARK 500 4 GLN A 70 -60.74 -101.17 REMARK 500 5 VAL A 4 54.12 -94.62 REMARK 500 5 GLU A 25 38.84 -162.66 REMARK 500 5 PHE A 45 45.57 -155.73 REMARK 500 5 ALA A 60 60.54 -118.62 REMARK 500 6 GLU A 25 35.90 -157.75 REMARK 500 6 PHE A 45 37.31 -154.90 REMARK 500 7 TYR A 3 -165.24 -102.20 REMARK 500 7 VAL A 4 -65.59 68.79 REMARK 500 7 GLN A 5 57.79 -97.94 REMARK 500 7 GLU A 25 37.73 -158.45 REMARK 500 7 PHE A 45 35.85 -156.08 REMARK 500 7 LEU A 90 -57.41 -123.41 REMARK 500 8 GLU A 25 36.54 -161.13 REMARK 500 8 PHE A 45 45.28 -155.19 REMARK 500 8 THR A 67 -176.71 -175.63 REMARK 500 9 ALA A 2 44.62 -152.35 REMARK 500 9 GLU A 25 34.61 -158.60 REMARK 500 9 PHE A 45 30.49 -152.04 REMARK 500 9 ALA A 60 61.97 -118.63 REMARK 500 9 THR A 67 -163.34 179.63 REMARK 500 10 TYR A 3 -67.01 68.67 REMARK 500 10 GLU A 25 33.31 -158.39 REMARK 500 10 PHE A 45 47.33 -157.45 REMARK 500 11 ALA A 2 -155.47 58.19 REMARK 500 11 GLU A 25 37.83 -161.97 REMARK 500 11 PHE A 45 36.10 -155.56 REMARK 500 11 ALA A 60 56.83 -118.63 REMARK 500 12 TYR A 3 -59.46 -157.71 REMARK 500 12 GLU A 25 33.56 -159.50 REMARK 500 12 PHE A 45 42.14 -155.57 REMARK 500 12 ALA A 60 50.60 -118.19 REMARK 500 13 GLU A 25 36.50 -158.89 REMARK 500 13 TYR A 41 -168.96 -128.43 REMARK 500 13 PHE A 45 35.00 -155.20 REMARK 500 13 TRP A 54 -169.10 -168.81 REMARK 500 13 LEU A 90 -51.59 -125.74 REMARK 500 14 GLU A 25 29.29 -156.93 REMARK 500 14 PHE A 45 37.30 -155.07 REMARK 500 14 LYS A 88 -66.83 -93.30 REMARK 500 14 ILE A 91 69.42 -103.82 REMARK 500 15 TYR A 3 89.90 58.61 REMARK 500 15 ARG A 23 -162.20 -104.49 REMARK 500 15 GLU A 25 31.83 -159.50 REMARK 500 15 PHE A 45 28.15 -153.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 23 0.29 SIDE_CHAIN REMARK 500 1 ARG A 44 0.32 SIDE_CHAIN REMARK 500 1 ARG A 52 0.30 SIDE_CHAIN REMARK 500 1 ARG A 62 0.32 SIDE_CHAIN REMARK 500 1 ARG A 68 0.32 SIDE_CHAIN REMARK 500 1 ARG A 83 0.20 SIDE_CHAIN REMARK 500 2 ARG A 23 0.31 SIDE_CHAIN REMARK 500 2 ARG A 44 0.31 SIDE_CHAIN REMARK 500 2 ARG A 52 0.30 SIDE_CHAIN REMARK 500 2 ARG A 62 0.31 SIDE_CHAIN REMARK 500 2 ARG A 68 0.32 SIDE_CHAIN REMARK 500 2 ARG A 83 0.31 SIDE_CHAIN REMARK 500 3 ARG A 23 0.32 SIDE_CHAIN REMARK 500 3 ARG A 44 0.32 SIDE_CHAIN REMARK 500 3 ARG A 52 0.31 SIDE_CHAIN REMARK 500 3 ARG A 62 0.31 SIDE_CHAIN REMARK 500 3 ARG A 68 0.32 SIDE_CHAIN REMARK 500 3 ARG A 83 0.31 SIDE_CHAIN REMARK 500 4 ARG A 23 0.30 SIDE_CHAIN REMARK 500 4 ARG A 44 0.31 SIDE_CHAIN REMARK 500 4 ARG A 52 0.28 SIDE_CHAIN REMARK 500 4 ARG A 62 0.30 SIDE_CHAIN REMARK 500 4 ARG A 68 0.31 SIDE_CHAIN REMARK 500 4 ARG A 83 0.30 SIDE_CHAIN REMARK 500 5 ARG A 23 0.28 SIDE_CHAIN REMARK 500 5 ARG A 44 0.32 SIDE_CHAIN REMARK 500 5 ARG A 52 0.31 SIDE_CHAIN REMARK 500 5 ARG A 62 0.31 SIDE_CHAIN REMARK 500 5 ARG A 68 0.30 SIDE_CHAIN REMARK 500 5 ARG A 83 0.32 SIDE_CHAIN REMARK 500 6 ARG A 23 0.30 SIDE_CHAIN REMARK 500 6 ARG A 44 0.32 SIDE_CHAIN REMARK 500 6 ARG A 52 0.26 SIDE_CHAIN REMARK 500 6 ARG A 62 0.31 SIDE_CHAIN REMARK 500 6 ARG A 68 0.28 SIDE_CHAIN REMARK 500 6 ARG A 83 0.31 SIDE_CHAIN REMARK 500 7 ARG A 23 0.31 SIDE_CHAIN REMARK 500 7 ARG A 44 0.32 SIDE_CHAIN REMARK 500 7 ARG A 52 0.26 SIDE_CHAIN REMARK 500 7 ARG A 62 0.32 SIDE_CHAIN REMARK 500 7 ARG A 68 0.30 SIDE_CHAIN REMARK 500 7 ARG A 83 0.31 SIDE_CHAIN REMARK 500 8 ARG A 23 0.32 SIDE_CHAIN REMARK 500 8 ARG A 44 0.29 SIDE_CHAIN REMARK 500 8 ARG A 52 0.29 SIDE_CHAIN REMARK 500 8 ARG A 62 0.32 SIDE_CHAIN REMARK 500 8 ARG A 68 0.32 SIDE_CHAIN REMARK 500 8 ARG A 83 0.29 SIDE_CHAIN REMARK 500 9 ARG A 23 0.32 SIDE_CHAIN REMARK 500 9 ARG A 44 0.32 SIDE_CHAIN REMARK 500 9 ARG A 52 0.32 SIDE_CHAIN REMARK 500 9 ARG A 62 0.32 SIDE_CHAIN REMARK 500 9 ARG A 68 0.29 SIDE_CHAIN REMARK 500 9 ARG A 83 0.29 SIDE_CHAIN REMARK 500 10 ARG A 23 0.27 SIDE_CHAIN REMARK 500 10 ARG A 44 0.31 SIDE_CHAIN REMARK 500 10 ARG A 52 0.30 SIDE_CHAIN REMARK 500 10 ARG A 62 0.32 SIDE_CHAIN REMARK 500 10 ARG A 68 0.32 SIDE_CHAIN REMARK 500 10 ARG A 83 0.29 SIDE_CHAIN REMARK 500 11 ARG A 23 0.32 SIDE_CHAIN REMARK 500 11 ARG A 44 0.32 SIDE_CHAIN REMARK 500 11 ARG A 52 0.29 SIDE_CHAIN REMARK 500 11 ARG A 62 0.22 SIDE_CHAIN REMARK 500 11 ARG A 68 0.29 SIDE_CHAIN REMARK 500 11 ARG A 83 0.23 SIDE_CHAIN REMARK 500 12 ARG A 23 0.32 SIDE_CHAIN REMARK 500 12 ARG A 44 0.31 SIDE_CHAIN REMARK 500 12 ARG A 52 0.30 SIDE_CHAIN REMARK 500 12 ARG A 62 0.30 SIDE_CHAIN REMARK 500 12 ARG A 68 0.32 SIDE_CHAIN REMARK 500 12 ARG A 83 0.31 SIDE_CHAIN REMARK 500 13 ARG A 23 0.30 SIDE_CHAIN REMARK 500 13 ARG A 44 0.30 SIDE_CHAIN REMARK 500 13 ARG A 52 0.24 SIDE_CHAIN REMARK 500 13 ARG A 62 0.32 SIDE_CHAIN REMARK 500 13 ARG A 68 0.30 SIDE_CHAIN REMARK 500 13 ARG A 83 0.25 SIDE_CHAIN REMARK 500 14 ARG A 23 0.32 SIDE_CHAIN REMARK 500 14 ARG A 44 0.28 SIDE_CHAIN REMARK 500 14 ARG A 52 0.32 SIDE_CHAIN REMARK 500 14 ARG A 62 0.30 SIDE_CHAIN REMARK 500 14 ARG A 68 0.30 SIDE_CHAIN REMARK 500 14 ARG A 83 0.31 SIDE_CHAIN REMARK 500 15 ARG A 23 0.27 SIDE_CHAIN REMARK 500 15 ARG A 44 0.32 SIDE_CHAIN REMARK 500 15 ARG A 52 0.30 SIDE_CHAIN REMARK 500 15 ARG A 62 0.26 SIDE_CHAIN REMARK 500 15 ARG A 68 0.31 SIDE_CHAIN REMARK 500 15 ARG A 83 0.28 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 999 REMARK 999 SEQUENCE REMARK 999 AT THE TIME OF PROCESSING, THE SEQUENCE OF THIS PROTEIN IS REMARK 999 NOT AVAILABLE AT THE UNP SEQUENCE DATABASE.
DBREF 2JOB A 1 102 PDB 2JOB 2JOB 1 102
SEQRES 1 A 102 GLU ALA TYR VAL GLN GLY TRP GLU ALA VAL ALA ALA ALA SEQRES 2 A 102 VAL ALA SER LYS ILE VAL GLY LEU TRP ARG ASN GLU LYS SEQRES 3 A 102 THR GLU LEU LEU GLY HIS GLU CYS LYS PHE THR VAL LYS SEQRES 4 A 102 PRO TYR LEU LYS ARG PHE GLN VAL TYR TYR LYS GLY ARG SEQRES 5 A 102 MET TRP CYS PRO GLY TRP THR ALA ILE ARG GLY GLU ALA SEQRES 6 A 102 SER THR ARG SER GLN SER GLY VAL ALA GLY LYS THR ALA SEQRES 7 A 102 LYS ASP PHE VAL ARG LYS ALA PHE GLN LYS GLY LEU ILE SEQRES 8 A 102 SER GLN GLN GLU ALA ASN GLN TRP LEU SER SER
HELIX 1 1 GLN A 5 LEU A 21 1 17 HELIX 2 2 SER A 69 GLY A 89 1 21 HELIX 3 3 SER A 92 SER A 102 1 11
SHEET 1 A 4 THR A 27 LEU A 29 0 SHEET 2 A 4 HIS A 32 LYS A 43 -1 O CYS A 34 N THR A 27 SHEET 3 A 4 GLN A 46 TRP A 54 -1 O TRP A 54 N LYS A 35 SHEET 4 A 4 ARG A 62 THR A 67 -1 O THR A 67 N TYR A 49
SSBOND 1 CYS A 34 CYS A 55 1555 1555 2.02
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