PDB Short entry for 2MBD HEADER ANTIMICROBIAL PROTEIN 30-JUL-13 2MBD TITLE LASIOCEPSIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: LASIOCEPSIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: LASIOGLOSSUM LATICEPS; SOURCE 4 ORGANISM_COMMON: BEES; SOURCE 5 ORGANISM_TAXID: 88510 KEYWDS ANTIMICROBIAL PEPTIDE, WILD BEE, VENOM, ANTIMICROBIAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 48 AUTHOR L.MONINCOVA,M.BUDESINSKY,S.CUJOVA,V.CEROVSKY,V.VEVERKA REVDAT 2 29-JAN-14 2MBD 1 JRNL REVDAT 1 15-JAN-14 2MBD 0 JRNL AUTH L.MONINCOVA,M.BUDESINSKY,S.CUJOVA,V.CEROVSKY,V.VEVERKA JRNL TITL STRUCTURAL BASIS FOR ANTIMICROBIAL ACTIVITY OF LASIOCEPSIN. JRNL REF CHEMBIOCHEM V. 15 301 2014 JRNL REFN ISSN 1439-4227 JRNL PMID 24339323 JRNL DOI 10.1002/CBIC.201300509 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA, AMBER REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), CASE, REMARK 3 DARDEN, CHEATHAM, III, SIMMERLING, WANG, DUKE, LUO, REMARK 3 ... AND KOLLMAN (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MBD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-AUG-13. REMARK 100 THE RCSB ID CODE IS RCSB103438. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 4 MM LASIOCEPSIN, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY; 2D 1H-1H TOCSY; REMARK 210 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, SPARKY REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING, SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 48 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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: 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 14 ARG A 4 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 22 ARG A 4 NE - CZ - NH1 ANGL. DEV. = 3.3 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 2 LYS A 26 73.64 49.07 REMARK 500 3 LYS A 16 67.08 -114.38 REMARK 500 4 LYS A 16 71.71 -116.85 REMARK 500 4 LYS A 26 114.97 55.02 REMARK 500 5 LYS A 26 82.51 55.48 REMARK 500 6 LYS A 16 60.27 -119.14 REMARK 500 9 LYS A 26 104.68 62.45 REMARK 500 18 LYS A 16 44.28 -99.16 REMARK 500 18 LYS A 26 107.50 41.36 REMARK 500 19 LYS A 16 71.41 -119.09 REMARK 500 23 LEU A 2 147.86 61.59 REMARK 500 23 LYS A 26 79.72 50.03 REMARK 500 27 LEU A 2 142.27 54.85 REMARK 500 30 LEU A 2 149.45 61.58 REMARK 500 35 LYS A 26 84.36 56.57 REMARK 500 36 CYS A 17 99.70 -69.10 REMARK 500 39 LYS A 26 119.14 61.82 REMARK 500 40 LYS A 26 75.05 46.21 REMARK 500 41 CYS A 17 85.15 -65.19 REMARK 500 41 LYS A 26 72.81 60.30 REMARK 500 44 LEU A 2 149.78 62.32 REMARK 500 47 LEU A 2 147.29 61.71 REMARK 500 47 LYS A 16 69.10 -103.52 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19396 RELATED DB: BMRB DBREF 2MBD A 1 27 PDB 2MBD 2MBD 1 27 SEQRES 1 A 27 GLY LEU PRO ARG LYS ILE LEU CYS ALA ILE ALA LYS LYS SEQRES 2 A 27 LYS GLY LYS CYS LYS GLY PRO LEU LYS LEU VAL CYS LYS SEQRES 3 A 27 CYS HELIX 1 1 PRO A 3 GLY A 15 1 13 HELIX 2 2 PRO A 20 LYS A 26 1 7 SSBOND 1 CYS A 8 CYS A 25 1555 1555 2.02 SSBOND 2 CYS A 17 CYS A 27 1555 1555 2.04 CISPEP 1 GLY A 19 PRO A 20 1 -3.00 CISPEP 2 GLY A 1 LEU A 2 12 -1.31 CISPEP 3 GLY A 1 LEU A 2 17 1.68 CISPEP 4 GLY A 1 LEU A 2 19 -1.39 CISPEP 5 GLY A 1 LEU A 2 20 -1.14 CISPEP 6 GLY A 1 LEU A 2 27 12.52 CISPEP 7 GLY A 1 LEU A 2 48 -1.38 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