HEADER ANTIMICROBIAL PROTEIN 21-JAN-18 5Z5W TITLE VFR12 IN COMPLEX WITH LPS MICELLES COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDE FROM PROTHROMBIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: COAGULATION FACTOR II; COMPND 5 EC: 3.4.21.5; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 4 ORGANISM_COMMON: HUMAN; SOURCE 5 ORGANISM_TAXID: 9606 KEYWDS SYNTHETIC PEPTIDE, ANTIMICROBIAL PROTEIN, THROMBIN C-TERMINAL KEYWDS 2 PEPTIDE, LPS BINDING PEPTIDE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR R.SARAVANAN,A.SCHMIDTCHEN REVDAT 2 01-AUG-18 5Z5W 1 JRNL REVDAT 1 07-MAR-18 5Z5W 0 JRNL AUTH R.SARAVANAN,D.A.HOLDBROOK,J.PETRLOVA,S.SINGH,N.A.BERGLUND, JRNL AUTH 2 Y.K.CHOONG,S.KJELLSTROM,P.J.BOND,M.MALMSTEN,A.SCHMIDTCHEN JRNL TITL STRUCTURAL BASIS FOR ENDOTOXIN NEUTRALISATION AND JRNL TITL 2 ANTI-INFLAMMATORY ACTIVITY OF THROMBIN-DERIVED C-TERMINAL JRNL TITL 3 PEPTIDES. JRNL REF NAT COMMUN V. 9 2762 2018 JRNL REFN ESSN 2041-1723 JRNL PMID 30018388 JRNL DOI 10.1038/S41467-018-05242-0 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA, CYANA REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), REMARK 3 GUNTERT, MUMENTHALER AND WUTHRICH (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5Z5W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-JAN-18. REMARK 100 THE DEPOSITION ID IS D_1300006529. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 4.5 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : 1 MMHG REMARK 210 SAMPLE CONTENTS : 0.5 MM THROMBIN C-TERMINAL REMARK 210 PEPTIDE, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H TOCSY; 2D 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, MOLMOL, TOPSPIN REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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 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 ARG A 3 75.21 -113.46 REMARK 500 2 ARG A 3 61.26 -109.03 REMARK 500 3 ARG A 3 65.62 -109.87 REMARK 500 5 ARG A 3 68.81 -109.19 REMARK 500 7 PHE A 2 69.01 -119.65 REMARK 500 7 ARG A 3 67.46 -106.57 REMARK 500 8 PHE A 2 45.30 -107.94 REMARK 500 8 ARG A 3 72.26 -111.16 REMARK 500 11 ARG A 3 61.28 -113.68 REMARK 500 14 ARG A 3 58.97 -115.35 REMARK 500 15 PHE A 2 -169.93 -120.09 REMARK 500 15 ARG A 3 30.51 -99.80 REMARK 500 17 ARG A 3 51.79 -116.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 21080 RELATED DB: BMRB DBREF 5Z5W A 1 12 UNP P00734 THRB_HUMAN 606 617 SEQRES 1 A 12 VAL PHE ARG LEU LYS LYS TRP ILE GLN LYS VAL ILE HELIX 1 AA1 TRP A 7 ILE A 12 1 6 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 MODEL 2 MODEL 3 MODEL 4 MODEL 5 MODEL 6 MODEL 7 MODEL 8 MODEL 9 MODEL 10 MODEL 11 MODEL 12 MODEL 13 MODEL 14 MODEL 15 MODEL 16 MODEL 17 MODEL 18 MODEL 19 MODEL 20