PDB Short entry for 1B8W HEADER TOXIN 02-FEB-99 1B8W TITLE DEFENSIN-LIKE PEPTIDE 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (DEFENSIN-LIKE PEPTIDE 1); COMPND 3 CHAIN: A; COMPND 4 OTHER_DETAILS: FROM PLATYPUS VENOM SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORNITHORHYNCHUS ANATINUS; SOURCE 3 ORGANISM_COMMON: PLATYPUS; SOURCE 4 ORGANISM_TAXID: 9258; SOURCE 5 ORGAN: SPUR; SOURCE 6 TISSUE: VENOM GLAND; SOURCE 7 SECRETION: VENOM KEYWDS TOXIN, PLATYPUS EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.M.TORRES,X.WANG,J.I.FLETCHER,D.ALEWOOD,P.F.ALEWOOD,R.SMITH, AUTHOR 2 R.J.SIMPSON,G.M.NICHOLSON,S.K.SUTHERLAND,C.H.GALLAGHER,G.F.KING, AUTHOR 3 P.W.KUCHEL REVDAT 4 27-DEC-23 1B8W 1 REMARK REVDAT 3 30-OCT-19 1B8W 1 REMARK REVDAT 2 24-FEB-09 1B8W 1 VERSN REVDAT 1 15-SEP-99 1B8W 0 JRNL AUTH A.M.TORRES,X.WANG,J.I.FLETCHER,D.ALEWOOD,P.F.ALEWOOD, JRNL AUTH 2 R.SMITH,R.J.SIMPSON,G.M.NICHOLSON,S.K.SUTHERLAND, JRNL AUTH 3 C.H.GALLAGHER,G.F.KING,P.W.KUCHEL JRNL TITL SOLUTION STRUCTURE OF A DEFENSIN-LIKE PEPTIDE FROM PLATYPUS JRNL TITL 2 VENOM. JRNL REF BIOCHEM.J. V. 341 785 1999 JRNL REFN ISSN 0264-6021 JRNL PMID 10417345 JRNL DOI 10.1042/0264-6021:3410785 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.DE PLATER,R.L.MARTIN,P.J.MILBURN REMARK 1 TITL A PHARMACOLOGICAL AND BIOCHEMICAL INVESTIGATION OF THE VENOM REMARK 1 TITL 2 FROM THE PLATYPUS (ORNITHORHYNCHUS ANATINUS) REMARK 1 REF TOXICON V. 33 157 1995 REMARK 1 REFN ISSN 0041-0101 REMARK 1 DOI 10.1016/0041-0101(94)00150-7 REMARK 1 REFERENCE 2 REMARK 1 AUTH S.K.SUTHERLAND REMARK 1 TITL AUSTRALIAN ANIMAL TOXINS: THE CREATURES, THEIR TOXINS AND REMARK 1 TITL 2 CARE OF THE POISONED PATIENT REMARK 1 REF TO BE PUBLISHED 1983 REMARK 1 PUBL MELBOURNE : OXFORD UNIVERSITY PRESS REMARK 1 REFN 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: REFINEMENT WAS CARRIED-OUT BY SIMULATED REMARK 3 ANNEALING PROTOCOL USING SIMPLIFIED ALL-HYDROGEN FORCE FIELD AND REMARK 3 STANDARD X-PLOR PARAMATERS FOR COVALENT GEOMETRY. REMARK 4 REMARK 4 1B8W COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-FEB-99. REMARK 100 THE DEPOSITION ID IS D_1000000435. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 3.9 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : 3.4MM REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY; DQF-COSY; TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX600 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWIN-NMR, XEASY, DYANA, X-PLOR, REMARK 210 MOLMOL REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 1000 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST RESTRAINT VIOLATION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING 1D AND 2D NMR REMARK 210 SPECTROSCOPY USING CHEMICALLY SYNTHESIZED DLP-1. 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 HB3 ARG A 25 HE ARG A 41 1.21 REMARK 500 OD1 ASP A 8 O CYS A 32 2.19 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 PRO A 6 -115.92 -50.64 REMARK 500 1 ASP A 8 -144.14 -94.42 REMARK 500 1 ASN A 13 37.49 80.42 REMARK 500 1 ARG A 17 -161.14 -112.42 REMARK 500 1 THR A 21 -105.03 -44.52 REMARK 500 1 VAL A 22 -65.41 -175.29 REMARK 500 1 ARG A 25 128.94 -10.77 REMARK 500 1 PHE A 28 21.88 -61.04 REMARK 500 1 LEU A 29 -35.90 -130.53 REMARK 500 1 CYS A 32 -147.56 -99.62 REMARK 500 1 TYR A 33 -9.74 -149.23 REMARK 500 1 ASP A 35 -25.20 88.78 REMARK 500 2 GLN A 3 -165.44 37.06 REMARK 500 2 PRO A 6 -114.58 -67.89 REMARK 500 2 ASN A 13 42.88 80.37 REMARK 500 2 ARG A 17 -155.90 -111.36 REMARK 500 2 THR A 21 -107.54 -43.55 REMARK 500 2 VAL A 22 -65.28 -176.11 REMARK 500 2 CYS A 24 67.07 -100.61 REMARK 500 2 ARG A 25 136.42 -16.60 REMARK 500 2 PHE A 28 -73.01 -40.07 REMARK 500 2 LEU A 29 -48.30 -23.44 REMARK 500 2 CYS A 32 -153.82 -99.06 REMARK 500 2 TYR A 33 -5.31 -144.74 REMARK 500 2 ASN A 34 -107.94 -88.92 REMARK 500 2 ASP A 35 -34.05 -159.82 REMARK 500 3 PRO A 6 -87.16 -62.29 REMARK 500 3 ASN A 13 33.70 79.36 REMARK 500 3 ARG A 17 -158.03 -108.34 REMARK 500 3 THR A 21 -111.43 -51.51 REMARK 500 3 VAL A 22 -63.32 -175.38 REMARK 500 3 CYS A 24 77.01 -108.24 REMARK 500 3 ARG A 25 123.95 -22.96 REMARK 500 3 LEU A 29 -48.86 -29.71 REMARK 500 3 CYS A 32 -147.30 -99.15 REMARK 500 3 TYR A 33 -9.70 -146.56 REMARK 500 3 ASP A 35 -27.04 87.57 REMARK 500 4 PRO A 6 172.85 -53.95 REMARK 500 4 ASN A 13 42.49 81.19 REMARK 500 4 ARG A 17 -157.17 -113.49 REMARK 500 4 THR A 21 -108.32 -44.92 REMARK 500 4 VAL A 22 -64.15 -175.22 REMARK 500 4 CYS A 24 68.56 -100.77 REMARK 500 4 ARG A 25 129.28 -19.27 REMARK 500 4 PHE A 28 13.46 -54.13 REMARK 500 4 CYS A 32 -138.72 -99.06 REMARK 500 4 TYR A 33 -8.28 -160.40 REMARK 500 4 ASP A 35 -24.75 89.64 REMARK 500 5 GLN A 3 79.60 -55.04 REMARK 500 5 HIS A 4 -56.10 -123.56 REMARK 500 REMARK 500 THIS ENTRY HAS 261 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1B8W A 1 42 UNP P82172 DLP1_ORNAN 1 42 SEQRES 1 A 42 PHE VAL GLN HIS ARG PRO ARG ASP CYS GLU SER ILE ASN SEQRES 2 A 42 GLY VAL CYS ARG HIS LYS ASP THR VAL ASN CYS ARG GLU SEQRES 3 A 42 ILE PHE LEU ALA ASP CYS TYR ASN ASP GLY GLN LYS CYS SEQRES 4 A 42 CYS ARG LYS HELIX 1 1 CYS A 9 ASN A 13 5 5 SHEET 1 S 2 VAL A 15 HIS A 18 0 SHEET 2 S 2 GLN A 37 CYS A 40 -1 O CYS A 40 N VAL A 15 SSBOND 1 CYS A 9 CYS A 39 1555 1555 2.03 SSBOND 2 CYS A 16 CYS A 32 1555 1555 2.03 SSBOND 3 CYS A 24 CYS A 40 1555 1555 2.03 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