HEADER METAL TRANSPORT 27-OCT-04 1XV7 TITLE SOLUTION STRUCTURE OF ANTIMICROBIAL AND ENDOTOXIN-NEUTRALIZING PEPTIDE TITLE 2 LF11 IN DPC MICELLES COMPND MOL_ID: 1; COMPND 2 MOLECULE: LACTOFERRIN-BASED SYNTHETIC PEPTIDE FQWQRNIRKVR; COMPND 3 CHAIN: A; COMPND 4 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 LOOP, HYDROPHOBIC CORE, METAL TRANSPORT EXPDTA SOLUTION NMR NUMMDL 7 AUTHOR B.JAPELJ,P.PRISTOVSEK,A.MAJERLE,R.JERALA REVDAT 5 23-OCT-24 1XV7 1 REMARK REVDAT 4 24-JUN-20 1XV7 1 SOURCE REMARK DBREF LINK REVDAT 3 24-FEB-09 1XV7 1 VERSN REVDAT 2 03-MAY-05 1XV7 1 JRNL REVDAT 1 22-MAR-05 1XV7 0 JRNL AUTH B.JAPELJ,P.PRISTOVSEK,A.MAJERLE,R.JERALA JRNL TITL STRUCTURAL ORIGIN OF ENDOTOXIN NEUTRALIZATION AND JRNL TITL 2 ANTIMICROBIAL ACTIVITY OF A LACTOFERRIN-BASED PEPTIDE JRNL REF J.BIOL.CHEM. V. 280 16955 2005 JRNL REFN ISSN 0021-9258 JRNL PMID 15687491 JRNL DOI 10.1074/JBC.M500266200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DYANA 1.5, DYANA 1.5 REMARK 3 AUTHORS : GUNTERT,P., BRAUN,W., WUTHRICH,K. (DYANA), REMARK 3 GUNTERT,P., BRAUN,W., WUTHRICH,K. (DYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1XV7 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 30-OCT-04. REMARK 100 THE DEPOSITION ID IS D_1000030801. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 5.5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2MM LF11; 240MM DPC-D38, 20MM REMARK 210 SODIUM PHOSPHATE BUFFER (PH 5.5), REMARK 210 92% H20, 8% D20 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA 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 : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 7 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 7 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: 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 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 ARG A 11 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 2 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 2 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 2 ARG A 11 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 3 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 3 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 3 ARG A 11 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 4 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 4 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 4 ARG A 11 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 5 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 5 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 5 ARG A 11 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 6 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 6 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 6 ARG A 11 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 7 ARG A 5 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 7 ARG A 8 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 7 ARG A 11 NE - CZ - NH1 ANGL. DEV. = 4.0 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 ASN A 6 93.69 60.74 REMARK 500 1 VAL A 10 -57.25 -166.14 REMARK 500 2 GLN A 2 44.21 -85.47 REMARK 500 2 GLN A 4 -60.95 -159.82 REMARK 500 2 ARG A 5 17.70 54.77 REMARK 500 2 ILE A 7 -87.94 -82.88 REMARK 500 2 ARG A 8 68.45 -167.81 REMARK 500 3 GLN A 2 70.09 60.07 REMARK 500 3 ARG A 5 94.24 71.70 REMARK 500 3 ASN A 6 77.26 67.96 REMARK 500 3 ARG A 8 58.74 -98.44 REMARK 500 3 VAL A 10 99.97 74.67 REMARK 500 4 TRP A 3 -161.25 69.48 REMARK 500 4 ASN A 6 44.62 -103.31 REMARK 500 4 ARG A 8 60.50 -153.42 REMARK 500 5 ILE A 7 -75.99 -63.61 REMARK 500 6 GLN A 4 -74.21 -119.33 REMARK 500 6 ASN A 6 75.20 -162.19 REMARK 500 6 VAL A 10 -60.47 -156.74 REMARK 500 7 GLN A 2 78.16 -103.30 REMARK 500 7 ILE A 7 -70.58 -131.85 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NH2 A 12 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1XV4 RELATED DB: PDB REMARK 900 PEPTIDE LF11 IN SDS MICELLES DBREF 1XV7 A 1 12 PDB 1XV7 1XV7 1 12 SEQRES 1 A 12 PHE GLN TRP GLN ARG ASN ILE ARG LYS VAL ARG NH2 HET NH2 A 12 3 HETNAM NH2 AMINO GROUP FORMUL 1 NH2 H2 N LINK C ARG A 11 N NH2 A 12 1555 1555 1.33 SITE 1 AC1 1 ARG A 11 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