HEADER ANTIMICROBIAL PROTEIN 10-OCT-19 6T33 TITLE THE UNUSUAL STRUCTURE OF RUMINOCOCCIN C1 ANTIMICROBIAL PEPTIDE CONFERS TITLE 2 ACTIVITY AGAINST CLINICAL PATHOGENS COMPND MOL_ID: 1; COMPND 2 MOLECULE: RUMINOCOCCIN C; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: FOUR CYSTEINE SULFUR TO ALPHA-CARBON CROSS-LINKS COMPND 6 BETWEEN C3/N16, C5/A12, C22/K42 AND C26/R34 D STEREOCHEMISTRY AT COMPND 7 ALA12 (ALPHA-S), ASN16 (ALPHA-S), ARG34 (ALPHA-S) AND LYS42 (ALPHA-S) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: [RUMINOCOCCUS] GNAVUS E1; SOURCE 3 ORGANISM_TAXID: 935582; SOURCE 4 GENE: RUMC1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BACTERIOCIN, RUMINOCCIN, ANTIBIOTIC, THIOETHER BRIDGE, ANTIMICROBIAL KEYWDS 2 PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.CHIUMENTO,C.ROBLIN,O.BORNET,M.NOUAILLER,C.MULLER,C.BASSET, AUTHOR 2 S.KIEFFER-JAQUINOD,Y.COUTE,S.TORELLI,L.LE PAPE,V.SHUNEMANN, AUTHOR 3 K.JEANNOT,C.NICOLETTI,O.IRANZO,M.MARESCA,T.GIARDINA,M.FONS, AUTHOR 4 E.DEVILLARD,J.PERRIER,M.ATTA,F.GUERLESQUIN,M.LAFOND,V.DUARTE REVDAT 4 19-JUN-24 6T33 1 REMARK REVDAT 3 14-JUN-23 6T33 1 REMARK REVDAT 2 26-AUG-20 6T33 1 JRNL REVDAT 1 12-AUG-20 6T33 0 JRNL AUTH C.ROBLIN,S.CHIUMENTO,O.BORNET,M.NOUAILLER,C.S.MULLER, JRNL AUTH 2 K.JEANNOT,C.BASSET,S.KIEFFER-JAQUINOD,Y.COUTE,S.TORELLI, JRNL AUTH 3 L.LE PAPE,V.SCHUNEMANN,H.OLLEIK,B.DE LA VILLEON,P.SOCKEEL, JRNL AUTH 4 E.DI PASQUALE,C.NICOLETTI,N.VIDAL,L.POLJAK,O.IRANZO, JRNL AUTH 5 T.GIARDINA,M.FONS,E.DEVILLARD,P.POLARD,M.MARESCA,J.PERRIER, JRNL AUTH 6 M.ATTA,F.GUERLESQUIN,M.LAFOND,V.DUARTE JRNL TITL THE UNUSUAL STRUCTURE OF RUMINOCOCCIN C1 ANTIMICROBIAL JRNL TITL 2 PEPTIDE CONFERS CLINICAL PROPERTIES. JRNL REF PROC.NATL.ACAD.SCI.USA V. 117 19168 2020 JRNL REFN ESSN 1091-6490 JRNL PMID 32719135 JRNL DOI 10.1073/PNAS.2004045117 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STEPS : 60000 REMARK 4 REMARK 4 6T33 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-OCT-19. REMARK 100 THE DEPOSITION ID IS D_1292104735. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300; 300 REMARK 210 PH : 6.8; 6.8 REMARK 210 IONIC STRENGTH : 10; 10 REMARK 210 PRESSURE : 1 BAR; 1 BAR REMARK 210 SAMPLE CONTENTS : 2 MM RUMINOCOCCIN C1, 10 MM REMARK 210 SODIUM PHOSPHATE, 90% H2O/10% REMARK 210 D2O; 0.2 MM [U-13C; U-15N] REMARK 210 RUMINOCOCCIN C1, 10 MM SODIUM REMARK 210 PHOSPHATE, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D 1H-15N NOESY; 3D 1H-15N TOCSY; REMARK 210 3D HNHA; 3D HNCA; 3D HN(CO)CA; REMARK 210 3D HNCACB; 3D CBCA(CO)NH; 3D REMARK 210 HNCO; 3D HN(CA)CO; 3D HCCH-TOCSY; REMARK 210 2D 1H-1H TOCSY; 2D 1H-1H NOESY; REMARK 210 2D DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, CCPNMR ANALYSIS, CYANA REMARK 210 2.1 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3120 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL 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 SG CYS A 22 CA LYS A 42 1.99 REMARK 500 SG CYS A 5 CA ALA A 12 1.99 REMARK 500 SG CYS A 26 CA ARG A 34 2.00 REMARK 500 SG CYS A 3 CA ASN A 16 2.04 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 SER A 6 57.03 -93.56 REMARK 500 1 HIS A 15 -62.06 -94.48 REMARK 500 1 ASN A 16 -169.35 51.88 REMARK 500 1 ALA A 17 -59.97 -172.39 REMARK 500 1 ASN A 28 43.07 -108.11 REMARK 500 2 HIS A 15 -60.71 -96.41 REMARK 500 2 ASN A 16 -169.36 51.84 REMARK 500 2 ALA A 17 -66.92 -167.04 REMARK 500 2 ASN A 29 -57.53 -136.62 REMARK 500 3 SER A 6 58.21 -91.29 REMARK 500 3 HIS A 15 -61.45 -97.88 REMARK 500 3 ASN A 16 -169.36 51.82 REMARK 500 3 ALA A 17 -60.54 -163.82 REMARK 500 3 ASN A 28 40.29 -106.03 REMARK 500 4 HIS A 15 -62.16 -94.91 REMARK 500 4 ASN A 16 -169.35 51.77 REMARK 500 4 ALA A 17 -53.25 -168.20 REMARK 500 5 SER A 6 56.18 -91.10 REMARK 500 5 ASN A 16 -169.38 51.84 REMARK 500 5 ALA A 17 -51.74 -167.43 REMARK 500 5 CYS A 26 73.68 -167.90 REMARK 500 5 ASN A 28 33.57 -145.20 REMARK 500 5 ASN A 29 -61.58 -152.15 REMARK 500 6 HIS A 15 -62.16 -98.28 REMARK 500 6 ASN A 16 -169.39 51.81 REMARK 500 6 ALA A 17 -40.94 -168.71 REMARK 500 6 ASN A 29 -66.54 -120.98 REMARK 500 7 SER A 6 59.92 -94.15 REMARK 500 7 HIS A 15 -62.26 -94.10 REMARK 500 7 ASN A 16 -169.36 51.80 REMARK 500 7 ALA A 17 -53.74 -169.42 REMARK 500 7 ASN A 29 -55.79 -127.96 REMARK 500 8 HIS A 15 -61.50 -90.69 REMARK 500 8 ASN A 16 -169.33 51.78 REMARK 500 8 ALA A 17 -62.19 -160.85 REMARK 500 8 CYS A 26 55.19 -173.53 REMARK 500 8 ASN A 28 31.80 -166.69 REMARK 500 8 ASN A 29 -51.83 -145.68 REMARK 500 9 HIS A 15 -60.67 -101.82 REMARK 500 9 ASN A 16 -169.43 51.80 REMARK 500 9 ALA A 17 -54.60 -167.00 REMARK 500 10 HIS A 15 -61.19 -91.50 REMARK 500 10 ASN A 16 -169.31 51.78 REMARK 500 10 ALA A 17 -66.08 -158.54 REMARK 500 11 HIS A 15 -61.20 -97.38 REMARK 500 11 ASN A 16 -169.36 51.78 REMARK 500 11 ALA A 17 -63.88 -160.74 REMARK 500 11 CYS A 26 118.04 -167.26 REMARK 500 11 ASN A 29 -65.69 -149.05 REMARK 500 12 SER A 6 54.91 -92.88 REMARK 500 REMARK 500 THIS ENTRY HAS 87 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 50027 RELATED DB: BMRB DBREF 6T33 A 1 44 UNP F8QV07 F8QV07_RUMGN 20 63 SEQRES 1 A 44 TRP GLY CYS VAL CYS SER GLY SER THR ALA VAL ALA ASN SEQRES 2 A 44 SER HIS ASN ALA GLY PRO ALA TYR CYS VAL GLY TYR CYS SEQRES 3 A 44 GLY ASN ASN GLY VAL VAL THR ARG ASN ALA ASN ALA ASN SEQRES 4 A 44 VAL ALA LYS THR ALA HELIX 1 AA1 SER A 8 ASN A 16 1 9 HELIX 2 AA2 GLY A 30 ALA A 44 1 15 SHEET 1 AA1 2 CYS A 3 CYS A 5 0 SHEET 2 AA1 2 VAL A 23 TYR A 25 1 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