Header list of 1wrf.pdb file
Complete list - r 2 2 Bytes
HEADER ALLERGEN 15-OCT-04 1WRF
TITLE REFINED SOLUTION STRUCTURE OF DER F 2, THE MAJOR MITE ALLERGEN FROM
TITLE 2 DERMATOPHAGOIDES FARINAE
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: MITE GROUP 2 ALLERGEN DER F 2;
COMPND 3 CHAIN: A;
COMPND 4 SYNONYM: DER F II;
COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: DERMATOPHAGOIDES FARINAE;
SOURCE 3 ORGANISM_COMMON: AMERICAN HOUSE DUST MITE;
SOURCE 4 ORGANISM_TAXID: 6954;
SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21;
SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693;
SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21;
SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PFLT1
KEYWDS ALLERGEN, IMMUNOGLOBULIN FOLD
EXPDTA SOLUTION NMR
NUMMDL 11
MDLTYP MINIMIZED AVERAGE
AUTHOR S.ICHIKAWA,T.TAKAI,T.INOUE,T.YUUKI,Y.OKUMURA,K.OGURA,F.INAGAKI,
AUTHOR 2 H.HATANAKA
REVDAT 3 02-MAR-22 1WRF 1 REMARK
REVDAT 2 24-FEB-09 1WRF 1 VERSN
REVDAT 1 19-APR-05 1WRF 0
JRNL AUTH S.ICHIKAWA,T.TAKAI,T.INOUE,T.YUUKI,Y.OKUMURA,K.OGURA,
JRNL AUTH 2 F.INAGAKI,H.HATANAKA
JRNL TITL NMR STUDY ON THE MAJOR MITE ALLERGEN DER F 2: ITS REFINED
JRNL TITL 2 TERTIARY STRUCTURE, EPITOPES FOR MONOCLONAL ANTIBODIES AND
JRNL TITL 3 CHARACTERISTICS SHARED BY ML PROTEIN GROUP MEMBERS
JRNL REF J.BIOCHEM.(TOKYO) V. 137 255 2005
JRNL REFN ISSN 0021-924X
JRNL PMID 15809326
JRNL DOI 10.1093/JB/MVI039
REMARK 1
REMARK 1 REFERENCE 1
REMARK 1 AUTH S.ICHIKAWA,H.HATANAKA,T.YUUKI,N.IWAMOTO,S.KOJIMA,
REMARK 1 AUTH 2 C.NISHIYAMA,K.OGURA,Y.OKUMURA,F.INAGAKI
REMARK 1 TITL SOLUTION STRUCTURE OF DER F 2, THE MAJOR MITE ALLERGEN FOR
REMARK 1 TITL 2 ATOPIC DISEASES
REMARK 1 REF J.BIOL.CHEM. V. 273 356 1998
REMARK 1 REFN ISSN 0021-9258
REMARK 1 PMID 9417088
REMARK 1 DOI 10.1074/JBC.273.1.356
REMARK 2
REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : X-PLOR 3.1
REMARK 3 AUTHORS : BRUNGER
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS:
REMARK 3 THE STRUCTURES ARE BASED ON 1854 NOE-DERIVED DISTANCE CONSTRAINTS
REMARK 3 AND 132
REMARK 3 DIHEDRAL ANGLE RESTRAINTS.
REMARK 4
REMARK 4 1WRF COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-OCT-04.
REMARK 100 THE DEPOSITION ID IS D_1000023912.
REMARK 210
REMARK 210 EXPERIMENTAL DETAILS
REMARK 210 EXPERIMENT TYPE : NMR
REMARK 210 TEMPERATURE (KELVIN) : 328
REMARK 210 PH : 5.6
REMARK 210 IONIC STRENGTH : NULL
REMARK 210 PRESSURE : 1 ATM
REMARK 210 SAMPLE CONTENTS : 2.7MM OF DER F 2 U-15N,13C; 20MM
REMARK 210 KH2PO4/NA2HPO4 BUFFER; 90% H2O,
REMARK 210 10% D2O; 140MM N-OCTYL-B-D-
REMARK 210 GLUCOSIDE; 0.01% (W/V) NAN3
REMARK 210
REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C
REMARK 210 -SEPARATED_NOESY
REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ
REMARK 210 SPECTROMETER MODEL : UNITYPLUS
REMARK 210 SPECTROMETER MANUFACTURER : VARIAN
REMARK 210
REMARK 210 STRUCTURE DETERMINATION.
REMARK 210 SOFTWARE USED : NULL
REMARK 210 METHOD USED : SIMULATED ANNEALING
REMARK 210
REMARK 210 CONFORMERS, NUMBER CALCULATED : 100
REMARK 210 CONFORMERS, NUMBER SUBMITTED : 11
REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST FNOE+FCDIH+FREPEL
REMARK 210
REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1
REMARK 210
REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR
REMARK 210 SPECTROSCOPY.
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 1 ALA A 9 -69.93 -90.55
REMARK 500 1 ASN A 10 57.67 171.74
REMARK 500 1 LYS A 15 128.45 161.86
REMARK 500 1 LEU A 58 49.16 -109.20
REMARK 500 1 ASP A 59 26.64 44.40
REMARK 500 1 PRO A 66 -156.88 -82.56
REMARK 500 1 ILE A 68 -167.14 -104.67
REMARK 500 1 THR A 70 47.47 -86.74
REMARK 500 1 ASN A 71 81.86 177.75
REMARK 500 1 ALA A 98 115.72 -39.57
REMARK 500 1 LYS A 100 90.44 -50.36
REMARK 500 1 THR A 123 -86.99 -98.15
REMARK 500 2 ASN A 10 49.88 166.64
REMARK 500 2 GLU A 12 -70.99 -77.07
REMARK 500 2 LYS A 15 135.01 165.80
REMARK 500 2 ASP A 25 179.86 -51.05
REMARK 500 2 LEU A 58 45.00 -106.72
REMARK 500 2 ASP A 59 17.89 56.59
REMARK 500 2 ILE A 68 -156.82 -139.88
REMARK 500 2 THR A 70 48.19 -87.12
REMARK 500 2 ASN A 71 79.45 178.41
REMARK 500 2 LYS A 96 -10.74 75.38
REMARK 500 2 ALA A 98 113.65 -37.30
REMARK 500 2 THR A 123 -87.68 -102.70
REMARK 500 3 ALA A 9 -79.42 -60.38
REMARK 500 3 ASN A 10 37.73 -179.16
REMARK 500 3 ASN A 11 30.12 76.08
REMARK 500 3 LYS A 15 131.26 164.62
REMARK 500 3 ASP A 19 57.89 -100.48
REMARK 500 3 ASP A 25 170.53 -52.13
REMARK 500 3 PRO A 66 -158.38 -82.83
REMARK 500 3 ILE A 68 -156.41 -136.21
REMARK 500 3 THR A 70 48.06 -87.35
REMARK 500 3 ASN A 71 77.05 178.08
REMARK 500 3 ALA A 98 117.54 -36.17
REMARK 500 3 HIS A 124 75.05 54.03
REMARK 500 4 ALA A 9 -74.65 -75.33
REMARK 500 4 ASN A 10 55.64 178.49
REMARK 500 4 GLU A 12 -63.18 -98.90
REMARK 500 4 LYS A 15 141.59 156.98
REMARK 500 4 CYS A 21 -167.61 -59.65
REMARK 500 4 HIS A 22 15.30 -144.31
REMARK 500 4 SER A 24 46.72 38.14
REMARK 500 4 LEU A 58 56.97 -109.26
REMARK 500 4 ASP A 59 27.95 41.47
REMARK 500 4 PRO A 66 -157.46 -86.56
REMARK 500 4 ILE A 68 -157.66 -120.72
REMARK 500 4 THR A 70 45.08 -86.80
REMARK 500 4 ASN A 71 83.60 175.32
REMARK 500 4 ALA A 98 118.80 -34.83
REMARK 500
REMARK 500 THIS ENTRY HAS 146 RAMACHANDRAN OUTLIERS.
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 31 0.30 SIDE CHAIN
REMARK 500 1 ARG A 128 0.29 SIDE CHAIN
REMARK 500 2 ARG A 31 0.26 SIDE CHAIN
REMARK 500 2 ARG A 128 0.14 SIDE CHAIN
REMARK 500 3 ARG A 31 0.23 SIDE CHAIN
REMARK 500 3 ARG A 128 0.26 SIDE CHAIN
REMARK 500 4 ARG A 31 0.22 SIDE CHAIN
REMARK 500 4 ARG A 128 0.11 SIDE CHAIN
REMARK 500 5 ARG A 31 0.17 SIDE CHAIN
REMARK 500 5 ARG A 128 0.31 SIDE CHAIN
REMARK 500 6 ARG A 31 0.26 SIDE CHAIN
REMARK 500 6 ARG A 128 0.19 SIDE CHAIN
REMARK 500 7 ARG A 31 0.29 SIDE CHAIN
REMARK 500 7 ARG A 128 0.25 SIDE CHAIN
REMARK 500 8 ARG A 31 0.22 SIDE CHAIN
REMARK 500 8 ARG A 128 0.31 SIDE CHAIN
REMARK 500 9 ARG A 31 0.31 SIDE CHAIN
REMARK 500 9 ARG A 128 0.21 SIDE CHAIN
REMARK 500 10 ARG A 31 0.27 SIDE CHAIN
REMARK 500 10 ARG A 128 0.32 SIDE CHAIN
REMARK 500 11 ARG A 31 0.31 SIDE CHAIN
REMARK 500 11 ARG A 128 0.29 SIDE CHAIN
REMARK 500
REMARK 500 REMARK: NULL
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: 1AHK RELATED DB: PDB
REMARK 900 THE OLD MINIMIZED AVERAGED STRUCTURE
REMARK 900 RELATED ID: 1AHM RELATED DB: PDB
REMARK 900 THE OLD ENSEMBLE OF TEN CONFORMERS
DBREF 1WRF A 1 129 UNP Q00855 ALL2_DERFA 18 146
SEQADV 1WRF VAL A 76 UNP Q00855 MET 93 SEE REMARK 999
SEQRES 1 A 129 ASP GLN VAL ASP VAL LYS ASP CYS ALA ASN ASN GLU ILE
SEQRES 2 A 129 LYS LYS VAL MET VAL ASP GLY CYS HIS GLY SER ASP PRO
SEQRES 3 A 129 CYS ILE ILE HIS ARG GLY LYS PRO PHE THR LEU GLU ALA
SEQRES 4 A 129 LEU PHE ASP ALA ASN GLN ASN THR LYS THR ALA LYS ILE
SEQRES 5 A 129 GLU ILE LYS ALA SER LEU ASP GLY LEU GLU ILE ASP VAL
SEQRES 6 A 129 PRO GLY ILE ASP THR ASN ALA CYS HIS PHE VAL LYS CYS
SEQRES 7 A 129 PRO LEU VAL LYS GLY GLN GLN TYR ASP ILE LYS TYR THR
SEQRES 8 A 129 TRP ASN VAL PRO LYS ILE ALA PRO LYS SER GLU ASN VAL
SEQRES 9 A 129 VAL VAL THR VAL LYS LEU ILE GLY ASP ASN GLY VAL LEU
SEQRES 10 A 129 ALA CYS ALA ILE ALA THR HIS GLY LYS ILE ARG ASP
HELIX 1 1 ASN A 71 PHE A 75 5 5
SHEET 1 A 5 VAL A 5 ASP A 7 0
SHEET 2 A 5 GLY A 115 ALA A 122 -1 O ILE A 121 N LYS A 6
SHEET 3 A 5 VAL A 104 GLY A 112 -1 N LEU A 110 O LEU A 117
SHEET 4 A 5 LYS A 51 LEU A 58 -1 N LYS A 55 O THR A 107
SHEET 5 A 5 LEU A 61 ILE A 63 -1 O LEU A 61 N LEU A 58
SHEET 1 B 3 ILE A 13 MET A 17 0
SHEET 2 B 3 PRO A 34 ASP A 42 -1 O GLU A 38 N MET A 17
SHEET 3 B 3 GLN A 85 ASN A 93 -1 O TYR A 86 N PHE A 41
SHEET 1 C 2 CYS A 27 HIS A 30 0
SHEET 2 C 2 GLY A 125 ARG A 128 1 O LYS A 126 N ILE A 29
SSBOND 1 CYS A 8 CYS A 119 1555 1555 2.02
SSBOND 2 CYS A 21 CYS A 27 1555 1555 2.02
SSBOND 3 CYS A 73 CYS A 78 1555 1555 2.02
CISPEP 1 CYS A 78 PRO A 79 1 2.34
CISPEP 2 CYS A 78 PRO A 79 2 1.98
CISPEP 3 CYS A 78 PRO A 79 3 2.68
CISPEP 4 CYS A 78 PRO A 79 4 2.96
CISPEP 5 CYS A 78 PRO A 79 5 2.86
CISPEP 6 CYS A 78 PRO A 79 6 2.41
CISPEP 7 CYS A 78 PRO A 79 7 2.54
CISPEP 8 CYS A 78 PRO A 79 8 2.47
CISPEP 9 CYS A 78 PRO A 79 9 2.48
CISPEP 10 CYS A 78 PRO A 79 10 2.69
CISPEP 11 CYS A 78 PRO A 79 11 0.86
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
Complete list - r 2 2 Bytes