HEADER ANTIBIOTIC 05-FEB-10 2KTN OBSLTE 22-MAR-23 2KTN 8C5J TITLE SPATIAL STRUCTURE OF LCH-ALPHA PEPTIDE FROM TWO-COMPONENT LANTIBIOTIC TITLE 2 SYSTEM LICHENICIDIN VK21 COMPND MOL_ID: 1; COMPND 2 MOLECULE: LICHENICIDIN VK21 A1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 44-74 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS LICHENIFORMIS; SOURCE 3 ORGANISM_TAXID: 279010; SOURCE 4 STRAIN: VK21 KEYWDS LICHENICIDIN VK21, LANTIBIOTICS, LCHA, ANTIBIOTIC, LANTHIONINE, KEYWDS 2 THIOESTER, TWO-COMPONENT LANTIBIOTIC SYSTEM EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR K.S.MINEEV,Z.O.SHENKAREV,T.V.OVCHINNIKOVA,A.S.ARSENIEV REVDAT 7 22-MAR-23 2KTN 1 OBSLTE REMARK LINK REVDAT 6 10-AUG-11 2KTN 1 MODRES REVDAT 5 27-JUL-11 2KTN 1 REMARK REVDAT 4 13-JUL-11 2KTN 1 VERSN REVDAT 3 18-AUG-10 2KTN 1 SEQADV REVDAT 2 11-AUG-10 2KTN 1 KEYWDS MODRES REVDAT 1 21-JUL-10 2KTN 0 JRNL AUTH Z.O.SHENKAREV,E.I.FINKINA,E.K.NURMUKHAMEDOVA,S.V.BALANDIN, JRNL AUTH 2 K.S.MINEEV,K.D.NADEZHDIN,Z.A.YAKIMENKO,A.A.TAGAEV, JRNL AUTH 3 Y.V.TEMIROV,A.S.ARSENIEV,T.V.OVCHINNIKOVA JRNL TITL ISOLATION, STRUCTURE ELUCIDATION, AND SYNERGISTIC JRNL TITL 2 ANTIBACTERIAL ACTIVITY OF A NOVEL TWO-COMPONENT LANTIBIOTIC JRNL TITL 3 LICHENICIDIN FROM BACILLUS LICHENIFORMIS VK21. JRNL REF BIOCHEMISTRY V. 49 6462 2010 JRNL REFN ISSN 0006-2960 JRNL PMID 20578714 JRNL DOI 10.1021/BI100871B REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.1 REMARK 3 AUTHORS : GUNTERT, MUMENTHALER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KTN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-MAR-10. REMARK 100 THE DEPOSITION ID IS D_1000101559. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 3.5 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM LCHA-1, 500 MG [U-100% REMARK 210 2H] METHANOL-2, METHANOL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H COSY; 2D 1H-1H NOESY; REMARK 210 2D 1H-1H TOCSY; 2D 1H-13C HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CARA 1.5.3, TOPSPIN 2.1, CYANA REMARK 210 2.1 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 : TARGET FUNCTION 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 400 REMARK 400 COMPOUND REMARK 400 LICHENICIDIN VK21 A1 IS A LANTIBIOTIC. THE LANTIBIOTICS ARE REMARK 400 ARE CHARACTERIZED BY THIOESTER AMINO ACIDS LANTHIONINE REMARK 400 AND/OR METHYLLANTHIONINE. REMARK 400 HERE, LICHENICIDIN VK21 IS REPRESENTED BY THE SEQUENCE (SEQRES) REMARK 400 REMARK 400 THE ALPHA LICHENICIDIN PREPEPTIDE IS POLYPEPTIDE, A MEMBER OF REMARK 400 ANTIBIOTIC CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: ALPHA LICHENICIDIN PREPEPTIDE REMARK 400 CHAIN: A REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: LICHENICIDIN VK21 IS A TETRACYCLIC PEPTIDE. POST REMARK 400 TRANSLATIONAL MATURATION OF LANTIBIOTICS INVOLVES REMARK 400 THE ENZYMIC CONVERSION OF THR, AND SER INTO REMARK 400 DEHYDRATED AMINO ACIDS AND THE FORMATION OF REMARK 400 THIOETHER BONDS WITH CYSTEINE. THIOETHER BONDS WITH REMARK 400 CYSTEINE RESULT IN FOUR RINGS. THIS IS FOLLOWED BY REMARK 400 MEMBRANE TRANSLOCATION AND CLEAVAGE OF THE MODIFIED REMARK 400 PRECURSOR. 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 O DBB A 24 N GLU A 26 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 LEU A 4 129.07 -30.82 REMARK 500 1 LEU A 10 34.48 -83.83 REMARK 500 1 DAL A 11 170.39 -44.56 REMARK 500 1 LYS A 12 130.19 173.93 REMARK 500 1 LEU A 14 -164.85 44.63 REMARK 500 1 ASN A 17 -80.84 -179.50 REMARK 500 1 TYR A 19 -175.30 -54.96 REMARK 500 1 LEU A 20 47.73 -75.67 REMARK 500 1 LYS A 25 -35.51 -23.81 REMARK 500 2 LEU A 4 129.63 -30.61 REMARK 500 2 LYS A 12 80.99 -150.09 REMARK 500 2 ASN A 17 178.01 -54.43 REMARK 500 2 TYR A 19 -166.56 -76.98 REMARK 500 2 LEU A 20 157.62 -44.97 REMARK 500 2 LYS A 25 -35.42 -23.70 REMARK 500 2 SER A 30 26.99 -78.63 REMARK 500 3 LEU A 4 130.07 -30.70 REMARK 500 3 DAL A 11 177.95 -65.66 REMARK 500 3 PRO A 13 -163.70 -69.73 REMARK 500 3 LEU A 14 -163.58 -57.22 REMARK 500 3 ASN A 16 -164.98 46.27 REMARK 500 3 ASN A 17 -70.15 -44.95 REMARK 500 3 LYS A 25 -35.50 -23.58 REMARK 500 3 SER A 30 27.87 -78.68 REMARK 500 4 LEU A 4 129.23 -30.69 REMARK 500 4 CYS A 7 -82.77 -56.98 REMARK 500 4 LEU A 10 40.02 -90.22 REMARK 500 4 PRO A 13 -163.83 -69.71 REMARK 500 4 ASN A 16 -172.50 -54.07 REMARK 500 4 TYR A 19 -162.72 -56.75 REMARK 500 4 LYS A 25 -36.09 -22.99 REMARK 500 4 SER A 30 26.98 -79.25 REMARK 500 4 CYS A 31 40.46 -91.00 REMARK 500 5 LEU A 4 129.50 -30.70 REMARK 500 5 DAL A 11 -140.56 -65.56 REMARK 500 5 PRO A 13 -175.31 -69.81 REMARK 500 5 LEU A 14 -163.75 -79.51 REMARK 500 5 ASN A 16 95.58 44.45 REMARK 500 5 ASN A 17 -177.85 53.42 REMARK 500 5 TYR A 19 -169.75 -106.04 REMARK 500 5 LYS A 25 -35.54 -23.51 REMARK 500 5 SER A 30 27.58 -78.60 REMARK 500 6 LEU A 4 132.19 -30.70 REMARK 500 6 LYS A 12 80.96 34.34 REMARK 500 6 ASN A 16 -166.64 -54.76 REMARK 500 6 ASN A 17 -85.37 49.89 REMARK 500 6 TYR A 19 -175.05 -58.26 REMARK 500 6 LYS A 25 -35.38 -23.83 REMARK 500 6 SER A 30 28.04 -78.73 REMARK 500 7 LEU A 4 129.61 -30.72 REMARK 500 REMARK 500 THIS ENTRY HAS 157 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AJ1 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE LANTIBIOTIC ACTAGARDINE REMARK 900 RELATED ID: 1MQX RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF TYPE B LANTIBIOTICS MERSACIDIN IN MEOH/H2O REMARK 900 MIXTURE REMARK 900 RELATED ID: 1MQY RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF TYPE B LANTIBIOTICS MERSACIDIN IN DPC MICELLES REMARK 900 RELATED ID: 1MQZ RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF TYPE B LANTIBIOTICS MERSACIDIN BOUND TO LIPID REMARK 900 II IN DPC MICELLES REMARK 900 RELATED ID: 1QOW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE TUPE B LANTIBIOTIC MERSACIDIN REMARK 900 RELATED ID: 1W9N RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE LANTIBIOTIC EPILANCIN 15X REMARK 900 RELATED ID: 1WCO RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF NISIN AND LIPID II COMPLEX REMARK 900 RELATED ID: 2DDE RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE LANTIBIOTIC CINNAMYCIN COMPLEXED WITH REMARK 900 LYSOPHOSPHATIDYLETHANOLAMINE REMARK 900 RELATED ID: 2KTO RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF LCH-BETA PEPTIDE FROM TWO-COMPONENT REMARK 900 LANTIBIOTIC LICHENICIDIN VK21 A2 DBREF 2KTN A 1 32 UNP P86475 LANLA_BACLI 43 74 SEQRES 1 A 32 2KT ILE DBB LEU DHA DBU CYS ALA ILE LEU DAL LYS PRO SEQRES 2 A 32 LEU GLY ASN ASN GLY TYR LEU CYS DBB VAL DBB LYS GLU SEQRES 3 A 32 CYS MET PRO SER CYS ASN MODRES 2KTN DBB A 3 THR POST-TRANSLATIONAL MODIFICATION MODRES 2KTN DHA A 5 ALA POST-TRANSLATIONAL MODIFICATION MODRES 2KTN DBU A 6 THR POST-TRANSLATIONAL MODIFICATION MODRES 2KTN DAL A 11 SER POST-TRANSLATIONAL MODIFICATION MODRES 2KTN DBB A 22 THR POST-TRANSLATIONAL MODIFICATION MODRES 2KTN DBB A 24 THR POST-TRANSLATIONAL MODIFICATION HET 2KT A 1 11 HET DBB A 3 12 HET DHA A 5 8 HET DBU A 6 11 HET DAL A 11 9 HET DBB A 22 12 HET DBB A 24 12 HETNAM 2KT 2-KETOBUTYRIC ACID HETNAM DBB D-ALPHA-AMINOBUTYRIC ACID HETNAM DHA 2-AMINO-ACRYLIC ACID HETNAM DBU (2Z)-2-AMINOBUT-2-ENOIC ACID HETNAM DAL D-ALANINE HETSYN 2KT 2-OXOBUTANOIC ACID HETSYN DHA 2,3-DIDEHYDROALANINE HETSYN DBU Z-DEHYDROBUTYRINE FORMUL 1 2KT C4 H6 O3 FORMUL 1 DBB 3(C4 H9 N O2) FORMUL 1 DHA C3 H5 N O2 FORMUL 1 DBU C4 H7 N O2 FORMUL 1 DAL C3 H7 N O2 HELIX 1 1 VAL A 23 CYS A 27 5 5 LINK C1 2KT A 1 N ILE A 2 1555 1555 1.33 LINK C ILE A 2 N DBB A 3 1555 1555 1.32 LINK C DBB A 3 N LEU A 4 1555 1555 1.33 LINK CB DBB A 3 SG CYS A 7 1555 1555 1.82 LINK C LEU A 4 N DHA A 5 1555 1555 1.33 LINK C DHA A 5 N DBU A 6 1555 1555 1.33 LINK C DBU A 6 N CYS A 7 1555 1555 1.33 LINK C LEU A 10 N DAL A 11 1555 1555 1.32 LINK C DAL A 11 N LYS A 12 1555 1555 1.33 LINK CB DAL A 11 SG CYS A 21 1555 1555 1.81 LINK C CYS A 21 N DBB A 22 1555 1555 1.32 LINK C DBB A 22 N VAL A 23 1555 1555 1.33 LINK CB DBB A 22 SG CYS A 27 1555 1555 1.82 LINK C VAL A 23 N DBB A 24 1555 1555 1.32 LINK C DBB A 24 N LYS A 25 1555 1555 1.33 LINK CB DBB A 24 SG CYS A 31 1555 1555 1.87 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 HETATM 1 C4 2KT A 1 11.022 11.429 16.128 1.00 3.21 C HETATM 2 C3 2KT A 1 10.990 10.619 17.131 1.00 74.04 C HETATM 3 C2 2KT A 1 10.156 10.942 18.036 1.00 55.34 C HETATM 4 O3 2KT A 1 10.382 11.870 18.817 1.00 71.15 O HETATM 5 C1 2KT A 1 9.003 10.270 18.155 1.00 11.14 C HETATM 6 O1 2KT A 1 8.773 9.371 17.346 1.00 15.02 O HETATM 7 H41 2KT A 1 11.035 12.417 16.284 1.00 71.13 H HETATM 8 H42 2KT A 1 11.785 11.395 15.482 1.00 73.30 H HETATM 9 H43 2KT A 1 10.285 11.419 15.452 1.00 22.53 H HETATM 10 H31 2KT A 1 10.851 9.784 16.598 1.00 52.11 H HETATM 11 H32 2KT A 1 11.948 10.458 17.368 1.00 34.00 H