HEADER ALLERGEN 10-APR-98 1A9V TITLE TERTIARY STRUCTURE OF THE MAJOR HOUSE DUST MITE ALLERGEN DER P 2, NMR, TITLE 2 10 STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: MITE ALLERGEN DER P 2; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 OTHER_DETAILS: D1S MUTANT MADE TO ENHANCE N-TERMINAL MET REMOVAL SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DERMATOPHAGOIDES PTERONYSSINUS; SOURCE 3 ORGANISM_COMMON: EUROPEAN HOUSE DUST MITE; SOURCE 4 ORGANISM_TAXID: 6956; SOURCE 5 CELL_LINE: BL21; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (PLYSE); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-21A KEYWDS ALLERGEN, IMMUNOGLOBULIN FOLD EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR G.A.MUELLER,D.C.BENJAMIN,G.S.RULE REVDAT 3 16-FEB-22 1A9V 1 REMARK REVDAT 2 24-FEB-09 1A9V 1 VERSN REVDAT 1 14-OCT-98 1A9V 0 JRNL AUTH G.A.MUELLER,D.C.BENJAMIN,G.S.RULE JRNL TITL TERTIARY STRUCTURE OF THE MAJOR HOUSE DUST MITE ALLERGEN DER JRNL TITL 2 P 2: SEQUENTIAL AND STRUCTURAL HOMOLOGIES. JRNL REF BIOCHEMISTRY V. 37 12707 1998 JRNL REFN ISSN 0006-2960 JRNL PMID 9737847 JRNL DOI 10.1021/BI980578+ REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.A.MUELLER,A.M.SMITH,D.C.WILLIAMS JUNIOR,G.A.HAKKAART, REMARK 1 AUTH 2 R.C.AALBERSE,M.D.CHAPMAN,G.S.RULE,D.C.BENJAMIN REMARK 1 TITL EXPRESSION AND SECONDARY STRUCTURE DETERMINATION BY NMR REMARK 1 TITL 2 METHODS OF THE MAJOR HOUSE DUST MITE ALLERGEN DER P 2 REMARK 1 REF J.BIOL.CHEM. V. 272 26893 1997 REMARK 1 REFN ISSN 0021-9258 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.8 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: CONVENTIONAL REMARK 4 REMARK 4 1A9V COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000170573. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 50 MM NACL 100 MM K2SO4 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 90 H2O/10 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : HNCA; CA(CO)HN; HN(CA)HA; REMARK 210 HA(CACO)NH; HNCACB; CBCA(CO)NH; REMARK 210 HNCO; CBACOHA; HBHA(CACO)NH; REMARK 210 HCCH-TOCSY; HSQC-NOESY; CHH- REMARK 210 NOESY; HCH-NOESY; NHNH-NOESY; CN- REMARK 210 NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : UNITYPLUS REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX, X-PLOR 3.821 REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED REMARK 210 ANNEAL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: STRUCTURE WAS DETERMINED USING DOUBLE LABELED MATERIAL AND REMARK 210 TRIPLE RESONANCE METHODS 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: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 HB2 LYS A 109 HB2 CYS A 119 1.26 REMARK 500 H ASP A 59 O ASN A 103 1.50 REMARK 500 REMARK 500 REMARK: NULL 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 VAL A 5 N - CA - CB ANGL. DEV. = -15.5 DEGREES REMARK 500 1 GLU A 62 N - CA - CB ANGL. DEV. = -13.7 DEGREES REMARK 500 1 ASP A 64 N - CA - CB ANGL. DEV. = -14.2 DEGREES REMARK 500 1 GLU A 102 CB - CA - C ANGL. DEV. = -13.5 DEGREES REMARK 500 1 ASN A 103 N - CA - CB ANGL. DEV. = -18.4 DEGREES REMARK 500 2 VAL A 5 N - CA - CB ANGL. DEV. = -15.7 DEGREES REMARK 500 2 GLU A 62 N - CA - CB ANGL. DEV. = -13.8 DEGREES REMARK 500 2 ASP A 64 N - CA - CB ANGL. DEV. = -14.1 DEGREES REMARK 500 2 GLU A 102 CB - CA - C ANGL. DEV. = -13.7 DEGREES REMARK 500 2 ASN A 103 N - CA - CB ANGL. DEV. = -18.4 DEGREES REMARK 500 3 VAL A 5 N - CA - CB ANGL. DEV. = -15.7 DEGREES REMARK 500 3 GLU A 62 N - CA - CB ANGL. DEV. = -13.5 DEGREES REMARK 500 3 ASP A 64 N - CA - CB ANGL. DEV. = -14.1 DEGREES REMARK 500 3 GLU A 102 CB - CA - C ANGL. DEV. = -13.7 DEGREES REMARK 500 3 ASN A 103 N - CA - CB ANGL. DEV. = -18.3 DEGREES REMARK 500 4 VAL A 5 N - CA - CB ANGL. DEV. = -15.8 DEGREES REMARK 500 4 GLU A 62 N - CA - CB ANGL. DEV. = -13.8 DEGREES REMARK 500 4 ASP A 64 N - CA - CB ANGL. DEV. = -14.1 DEGREES REMARK 500 4 GLU A 102 CB - CA - C ANGL. DEV. = -13.0 DEGREES REMARK 500 4 ASN A 103 N - CA - CB ANGL. DEV. = -18.1 DEGREES REMARK 500 5 VAL A 5 N - CA - CB ANGL. DEV. = -15.4 DEGREES REMARK 500 5 GLU A 62 N - CA - CB ANGL. DEV. = -13.7 DEGREES REMARK 500 5 ASP A 64 N - CA - CB ANGL. DEV. = -14.1 DEGREES REMARK 500 5 GLU A 102 CB - CA - C ANGL. DEV. = -13.5 DEGREES REMARK 500 5 ASN A 103 N - CA - CB ANGL. DEV. = -18.1 DEGREES REMARK 500 6 VAL A 5 N - CA - CB ANGL. DEV. = -15.8 DEGREES REMARK 500 6 GLU A 62 N - CA - CB ANGL. DEV. = -13.8 DEGREES REMARK 500 6 ASP A 64 N - CA - CB ANGL. DEV. = -14.2 DEGREES REMARK 500 6 GLU A 102 CB - CA - C ANGL. DEV. = -13.0 DEGREES REMARK 500 6 ASN A 103 N - CA - CB ANGL. DEV. = -18.2 DEGREES REMARK 500 7 VAL A 5 N - CA - CB ANGL. DEV. = -15.6 DEGREES REMARK 500 7 GLU A 62 N - CA - CB ANGL. DEV. = -13.9 DEGREES REMARK 500 7 ASP A 64 N - CA - CB ANGL. DEV. = -14.1 DEGREES REMARK 500 7 GLU A 102 CB - CA - C ANGL. DEV. = -13.2 DEGREES REMARK 500 7 ASN A 103 N - CA - CB ANGL. DEV. = -18.1 DEGREES REMARK 500 8 VAL A 5 N - CA - CB ANGL. DEV. = -15.8 DEGREES REMARK 500 8 GLU A 62 N - CA - CB ANGL. DEV. = -13.7 DEGREES REMARK 500 8 ASP A 64 N - CA - CB ANGL. DEV. = -14.1 DEGREES REMARK 500 8 GLU A 102 CB - CA - C ANGL. DEV. = -13.5 DEGREES REMARK 500 8 ASN A 103 N - CA - CB ANGL. DEV. = -18.1 DEGREES REMARK 500 9 VAL A 5 N - CA - CB ANGL. DEV. = -15.6 DEGREES REMARK 500 9 GLU A 62 N - CA - CB ANGL. DEV. = -13.6 DEGREES REMARK 500 9 ASP A 64 N - CA - CB ANGL. DEV. = -14.0 DEGREES REMARK 500 9 GLU A 102 CB - CA - C ANGL. DEV. = -13.0 DEGREES REMARK 500 9 ASN A 103 N - CA - CB ANGL. DEV. = -18.2 DEGREES REMARK 500 10 VAL A 5 N - CA - CB ANGL. DEV. = -15.8 DEGREES REMARK 500 10 GLU A 62 N - CA - CB ANGL. DEV. = -13.9 DEGREES REMARK 500 10 ASP A 64 N - CA - CB ANGL. DEV. = -14.2 DEGREES REMARK 500 10 GLU A 102 CB - CA - C ANGL. DEV. = -13.4 DEGREES REMARK 500 10 ASN A 103 N - CA - CB ANGL. DEV. = -18.4 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 1 GLN A 2 157.02 64.00 REMARK 500 1 VAL A 5 -50.77 -161.30 REMARK 500 1 LYS A 6 139.46 84.86 REMARK 500 1 ALA A 9 -85.81 -124.43 REMARK 500 1 ASN A 10 65.04 -159.96 REMARK 500 1 HIS A 11 32.00 33.30 REMARK 500 1 ILE A 13 -165.24 -117.14 REMARK 500 1 LYS A 14 -48.03 -162.31 REMARK 500 1 ILE A 28 -166.03 -79.37 REMARK 500 1 HIS A 30 33.19 -70.36 REMARK 500 1 ARG A 31 170.39 58.10 REMARK 500 1 ASN A 44 50.51 -117.32 REMARK 500 1 GLN A 45 -159.44 166.87 REMARK 500 1 ASP A 59 62.35 35.84 REMARK 500 1 LEU A 61 57.02 -108.13 REMARK 500 1 ILE A 68 -163.56 174.30 REMARK 500 1 LYS A 77 95.51 -12.08 REMARK 500 1 PRO A 95 150.16 -37.03 REMARK 500 1 SER A 101 99.62 -42.96 REMARK 500 1 GLU A 102 -51.45 -163.67 REMARK 500 1 ASN A 103 79.22 -159.30 REMARK 500 1 VAL A 116 152.36 136.21 REMARK 500 1 LEU A 117 -59.51 -162.22 REMARK 500 1 THR A 123 -87.31 -148.70 REMARK 500 1 HIS A 124 82.69 8.68 REMARK 500 1 ALA A 125 79.20 -173.51 REMARK 500 1 LYS A 126 -155.81 -130.63 REMARK 500 2 ALA A 9 -84.54 -125.94 REMARK 500 2 ASN A 10 66.69 -159.46 REMARK 500 2 HIS A 11 33.11 33.57 REMARK 500 2 ILE A 13 -167.39 -121.15 REMARK 500 2 LYS A 14 -45.04 -162.34 REMARK 500 2 PRO A 19 93.83 -67.63 REMARK 500 2 ILE A 28 -146.38 -80.68 REMARK 500 2 HIS A 30 -90.98 -67.05 REMARK 500 2 ASN A 44 51.26 -114.87 REMARK 500 2 GLN A 45 -160.95 167.34 REMARK 500 2 ASP A 59 65.20 34.86 REMARK 500 2 LEU A 61 57.94 -108.30 REMARK 500 2 ILE A 68 -168.85 179.63 REMARK 500 2 PRO A 70 -5.21 -48.39 REMARK 500 2 LYS A 77 95.98 -19.88 REMARK 500 2 PRO A 95 154.07 -37.96 REMARK 500 2 ILE A 97 39.71 -140.27 REMARK 500 2 SER A 101 96.78 -43.43 REMARK 500 2 GLU A 102 -50.77 -163.64 REMARK 500 2 ASN A 103 81.58 -159.07 REMARK 500 2 VAL A 116 145.23 145.41 REMARK 500 2 LEU A 117 -57.43 -162.27 REMARK 500 2 ALA A 118 130.09 -173.81 REMARK 500 REMARK 500 THIS ENTRY HAS 240 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 0.31 SIDE CHAIN REMARK 500 1 ARG A 128 0.29 SIDE CHAIN REMARK 500 2 ARG A 31 0.32 SIDE CHAIN REMARK 500 2 ARG A 128 0.17 SIDE CHAIN REMARK 500 3 ARG A 31 0.28 SIDE CHAIN REMARK 500 3 ARG A 128 0.30 SIDE CHAIN REMARK 500 4 ARG A 31 0.31 SIDE CHAIN REMARK 500 4 ARG A 128 0.31 SIDE CHAIN REMARK 500 5 ARG A 31 0.31 SIDE CHAIN REMARK 500 5 ARG A 128 0.24 SIDE CHAIN REMARK 500 6 ARG A 31 0.25 SIDE CHAIN REMARK 500 6 ARG A 128 0.31 SIDE CHAIN REMARK 500 7 ARG A 31 0.25 SIDE CHAIN REMARK 500 7 ARG A 128 0.31 SIDE CHAIN REMARK 500 8 ARG A 31 0.32 SIDE CHAIN REMARK 500 8 ARG A 128 0.32 SIDE CHAIN REMARK 500 9 ARG A 31 0.26 SIDE CHAIN REMARK 500 10 ARG A 31 0.31 SIDE CHAIN REMARK 500 10 ARG A 128 0.27 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 1A9V A 2 129 UNP P49278 ALL2_DERPT 19 146 SEQRES 1 A 129 SER GLN VAL ASP VAL LYS ASP CYS ALA ASN HIS GLU ILE SEQRES 2 A 129 LYS LYS VAL LEU VAL PRO GLY CYS HIS GLY SER GLU PRO SEQRES 3 A 129 CYS ILE ILE HIS ARG GLY LYS PRO PHE GLN LEU GLU ALA SEQRES 4 A 129 VAL PHE GLU ALA ASN GLN ASN THR LYS THR ALA LYS ILE SEQRES 5 A 129 GLU ILE LYS ALA SER ILE ASP GLY LEU GLU VAL ASP VAL SEQRES 6 A 129 PRO GLY ILE ASP PRO ASN ALA CYS HIS TYR MET 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 VAL MET GLY ASP ASP GLY VAL LEU SEQRES 10 A 129 ALA CYS ALA ILE ALA THR HIS ALA LYS ILE ARG ASP HELIX 1 1 ILE A 58 GLY A 60 5 3 HELIX 2 2 ALA A 72 HIS A 74 5 3 SHEET 1 A 3 LYS A 15 LEU A 17 0 SHEET 2 A 3 LEU A 37 VAL A 40 -1 N VAL A 40 O LYS A 15 SHEET 3 A 3 ASP A 87 TYR A 90 -1 N TYR A 90 O LEU A 37 SHEET 1 B 3 GLU A 53 ALA A 56 0 SHEET 2 B 3 VAL A 106 VAL A 110 -1 N LYS A 109 O GLU A 53 SHEET 3 B 3 ALA A 118 ILE A 121 -1 N ALA A 120 O VAL A 108 SSBOND 1 CYS A 8 CYS A 119 1555 1555 2.03 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 0.69 CISPEP 2 CYS A 78 PRO A 79 2 0.18 CISPEP 3 CYS A 78 PRO A 79 3 1.30 CISPEP 4 CYS A 78 PRO A 79 4 1.14 CISPEP 5 CYS A 78 PRO A 79 5 0.39 CISPEP 6 CYS A 78 PRO A 79 6 0.04 CISPEP 7 CYS A 78 PRO A 79 7 0.05 CISPEP 8 CYS A 78 PRO A 79 8 0.06 CISPEP 9 CYS A 78 PRO A 79 9 0.66 CISPEP 10 CYS A 78 PRO A 79 10 1.04 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