HEADER ANTIMICROBIAL PROTEIN 09-SEP-13 2MDB TITLE TACHYPLESIN I IN THE PRESENCE OF LIPOPOLYSACCHARIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TACHYPLESIN-1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TACHYPLESIN I; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: TACHYPLEUS TRIDENTATUS; SOURCE 4 ORGANISM_COMMON: CHINESE HORSESHOE CRAB,JAPANESE HORSESHOE CRAB; SOURCE 5 ORGANISM_TAXID: 6853; SOURCE 6 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. KEYWDS PEPTIDE/LPS, ANTIMICROBIAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.KUSHIBIKI,M.KAMIYA,T.AIZAWA,Y.KUMAKI,T.KIKUKAWA,M.MIZUGUCHI, AUTHOR 2 M.DEMURA,S.I.KAWABATA,K.KAWANO REVDAT 3 14-JUN-23 2MDB 1 REMARK SEQADV LINK REVDAT 2 12-MAR-14 2MDB 1 REMARK REVDAT 1 19-FEB-14 2MDB 0 JRNL AUTH T.KUSHIBIKI,M.KAMIYA,T.AIZAWA,Y.KUMAKI,T.KIKUKAWA, JRNL AUTH 2 M.MIZUGUCHI,M.DEMURA,S.I.KAWABATA,K.KAWANO JRNL TITL INTERACTION BETWEEN TACHYPLESIN I, AN ANTIMICROBIAL PEPTIDE JRNL TITL 2 DERIVED FROM HORSESHOE CRAB, AND LIPOPOLYSACCHARIDE. JRNL REF BIOCHIM.BIOPHYS.ACTA V.1844 527 2014 JRNL REFN ISSN 0006-3002 JRNL PMID 24389234 JRNL DOI 10.1016/J.BBAPAP.2013.12.017 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH, X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X-PLOR REMARK 3 NIH), SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X- REMARK 3 PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MDB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1000103501. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 3.8 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : 750 UM TACHYPLESIN I-1, 50 UM REMARK 210 LIPOPOLYSACCHARIDE-2, 90 % H2O-3, REMARK 210 10 % D2O-4, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H TOCSY; 2D 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX; ECA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; JEOL REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 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: 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 HH21 ARG A 5 HE ARG A 14 1.22 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 TYR A 8 -82.66 -102.91 REMARK 500 1 ARG A 9 36.51 -90.59 REMARK 500 2 TYR A 8 -65.04 -150.44 REMARK 500 2 ARG A 9 22.82 -75.47 REMARK 500 3 TYR A 8 -54.09 -150.32 REMARK 500 3 ARG A 9 21.55 -73.47 REMARK 500 4 TYR A 8 -58.10 -145.06 REMARK 500 5 TYR A 8 45.56 -101.52 REMARK 500 6 TYR A 8 -76.68 -102.38 REMARK 500 6 ARG A 9 20.84 -78.42 REMARK 500 7 TYR A 8 -78.44 -95.35 REMARK 500 7 ARG A 9 44.30 -100.72 REMARK 500 8 TYR A 8 -75.96 -96.69 REMARK 500 8 ARG A 9 46.63 -109.63 REMARK 500 9 TYR A 8 -85.72 -132.35 REMARK 500 9 ARG A 9 38.92 -96.26 REMARK 500 10 ARG A 9 41.11 -147.49 REMARK 500 11 TYR A 8 -84.72 -92.33 REMARK 500 13 TYR A 8 -79.78 -95.47 REMARK 500 14 ARG A 9 45.93 -165.31 REMARK 500 15 TYR A 8 -63.59 -102.51 REMARK 500 16 TYR A 8 -75.93 -81.34 REMARK 500 16 ARG A 9 59.26 -145.69 REMARK 500 17 PHE A 4 73.64 -100.09 REMARK 500 17 ARG A 9 51.06 -159.05 REMARK 500 18 TYR A 8 -83.53 -103.97 REMARK 500 18 ARG A 9 40.71 -94.72 REMARK 500 19 TYR A 8 -84.11 -128.86 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 11538 RELATED DB: BMRB REMARK 900 RELATED ID: 21043 RELATED DB: BMRB DBREF 2MDB A 1 17 UNP P14213 TAC1_TACTR 24 40 SEQADV 2MDB NH2 A 18 UNP P14213 AMIDATION SEQRES 1 A 18 LYS TRP CYS PHE ARG VAL CYS TYR ARG GLY ILE CYS TYR SEQRES 2 A 18 ARG ARG CYS ARG NH2 HET NH2 A 18 3 HETNAM NH2 AMINO GROUP FORMUL 1 NH2 H2 N SHEET 1 A 2 CYS A 3 CYS A 7 0 SHEET 2 A 2 CYS A 12 CYS A 16 -1 O ARG A 15 N PHE A 4 SSBOND 1 CYS A 3 CYS A 16 1555 1555 2.02 SSBOND 2 CYS A 7 CYS A 12 1555 1555 2.02 LINK C ARG A 17 N NH2 A 18 1555 1555 1.30 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