HEADER ANTIBIOTIC 06-JUN-11 3SBN TITLE TRICHOVIRIN I-4A IN POLAR ENVIRONMENT AT 0.9 ANGSTROEM COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRICHOVIRIN I-4A; COMPND 3 CHAIN: A, B SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HYPOCREA RUFA; SOURCE 3 ORGANISM_COMMON: TRICHODERMA VIRIDE; SOURCE 4 ORGANISM_TAXID: 5547; SOURCE 5 STRAIN: NRRL 5243; SOURCE 6 OTHER_DETAILS: EQUIVALENT TO HARZIANIN HC-VI FROM TRICHODERMA SOURCE 7 HARZIANUM KEYWDS CURVED 310-HELIX, 3-10 HELIX, PEPTIDE ANTIBIOTIC, ANTIBIOTIC EXPDTA X-RAY DIFFRACTION AUTHOR R.GESSMANN,D.AXFORD,K.PETRATOS REVDAT 4 15-NOV-23 3SBN 1 REMARK LINK ATOM REVDAT 3 11-JUL-12 3SBN 1 MODRES REVDAT 2 15-FEB-12 3SBN 1 JRNL REVDAT 1 28-DEC-11 3SBN 0 JRNL AUTH R.GESSMANN,D.AXFORD,R.L.OWEN,H.BRUCKNER,K.PETRATOS JRNL TITL FOUR COMPLETE TURNS OF A CURVED 310-HELIX AT ATOMIC JRNL TITL 2 RESOLUTION: THE CRYSTAL STRUCTURE OF THE PEPTAIBOL JRNL TITL 3 TRICHOVIRIN I-4A IN POLAR ENVIRONMENT SUGGESTS A TRANSITION JRNL TITL 4 TO ALPHA-HELIX FOR MEMBRANE FUNCTION JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 68 109 2012 JRNL REFN ISSN 0907-4449 JRNL PMID 22281739 JRNL DOI 10.1107/S090744491105133X REMARK 2 REMARK 2 RESOLUTION. 0.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 0.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.102 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.128 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 679 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 13524 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : NULL REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.096 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.122 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 599 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 11128 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 196 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 16 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 212.50 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 230.00 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 4 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 2134 REMARK 3 NUMBER OF RESTRAINTS : 2263 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.045 REMARK 3 ANGLE DISTANCES (A) : 0.076 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : NULL REMARK 3 ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : NULL REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : NULL REMARK 3 SIMILAR ADP COMPONENTS (A**2) : NULL REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH & HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3SBN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JUN-11. REMARK 100 THE DEPOSITION ID IS D_1000066006. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-OCT-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.7469 REMARK 200 MONOCHROMATOR : ACCEL FIXED EXIT DOUBLE CRYSTAL REMARK 200 OPTICS : OXFORD DANFYSIK/SESO TWO STAGE REMARK 200 DEMAGNIFICATION USING TWO K-B REMARK 200 PAIRS OF BIMORPH T YPE MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13524 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.900 REMARK 200 RESOLUTION RANGE LOW (A) : 37.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 0.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: DIRECT METHODS REMARK 200 SOFTWARE USED: ACORN REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 23.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: METHANOL, ACETONITRILE, WATER, PH 7.0, REMARK 280 VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 4.94800 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 300 REMARK: AUTHOR STATES THAT THE BIOLOGICALLY SIGNIFICANT REMARK 300 OLIGOMERIZATION STATE IN APOLAR ENVIRONMENT IS NOT REPRESENTED IN REMARK 300 THE MONOMERIC STRUCTURE. THE STOICHIOMETRY OF THE OLIGOMER IN THE REMARK 300 MEMBRANE IS UNKNOWN. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 REMARK 400 THE TRICHOVIRIN I-4A IS PEPTAIBOL, A MEMBER OF ANTIBIOTIC CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: TRICHOVIRIN I-4A REMARK 400 CHAIN: A, B REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: NULL 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 VAL A 7 N - CA - CB ANGL. DEV. = -13.6 DEGREES REMARK 500 VAL A 7 CG1 - CB - CG2 ANGL. DEV. = -10.7 DEGREES REMARK 500 VAL B 27 N - CA - CB ANGL. DEV. = -15.5 DEGREES 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 CCN A 74 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CCN A 75 REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHOR CONFIRMS THAT THERE ARE TWO IDENTICAL ANITBOTICS UNDER REMARK 999 DIFFERENT NAMES FROM DIFFERENT SOUCES AS SEEN BETWEEN THE NORINE REMARK 999 ENTRY NOR00990 USED FOR THE SEQUENCE REFERENCE AND THIS ENTRY. DBREF 3SBN A 0 14 NOR NOR00990 NOR00990 1 15 DBREF 3SBN B 20 34 NOR NOR00990 NOR00990 1 15 SEQRES 1 A 15 ACE AIB ASN LEU AIB PRO ALA VAL AIB PRO AIB LEU AIB SEQRES 2 A 15 PRO DCL SEQRES 1 B 15 ACE AIB ASN LEU AIB PRO ALA VAL AIB PRO AIB LEU AIB SEQRES 2 B 15 PRO DCL HET ACE A 0 6 HET AIB A 1 13 HET AIB A 4 13 HET AIB A 8 13 HET AIB A 10 13 HET AIB A 12 13 HET DCL A 14 32 HET ACE B 20 6 HET AIB B 21 13 HET AIB B 24 13 HET AIB B 28 13 HET AIB B 30 13 HET AIB B 32 13 HET DCL B 34 22 HET CCN A 74 3 HET CCN A 75 3 HET MOH B 71 2 HET MOH B 72 3 HETNAM ACE ACETYL GROUP HETNAM AIB ALPHA-AMINOISOBUTYRIC ACID HETNAM DCL 2-AMINO-4-METHYL-PENTAN-1-OL HETNAM CCN ACETONITRILE HETNAM MOH METHANOL HETSYN DCL LEUCINOL FORMUL 1 ACE 2(C2 H4 O) FORMUL 1 AIB 10(C4 H9 N O2) FORMUL 1 DCL 2(C6 H15 N O) FORMUL 3 CCN 2(C2 H3 N) FORMUL 5 MOH 2(C H4 O) FORMUL 7 HOH *16(H2 O) HELIX 1 1 LEU A 3 AIB A 12 5 10 HELIX 2 2 LEU B 23 AIB B 32 5 10 LINK C ACE A 0 N AIB A 1 1555 1555 1.33 LINK C AIB A 1 N ASN A 2 1555 1555 1.34 LINK C LEU A 3 N AIB A 4 1555 1555 1.35 LINK C AIB A 4 N PRO A 5 1555 1555 1.34 LINK C VAL A 7 N AIB A 8 1555 1555 1.30 LINK C AIB A 8 N PRO A 9 1555 1555 1.33 LINK C PRO A 9 N AIB A 10 1555 1555 1.33 LINK C AIB A 10 N LEU A 11 1555 1555 1.35 LINK C LEU A 11 N AIB A 12 1555 1555 1.31 LINK C AIB A 12 N PRO A 13 1555 1555 1.31 LINK C PRO A 13 N DCL A 14 1555 1555 1.27 LINK C ACE B 20 N AIB B 21 1555 1555 1.30 LINK C AIB B 21 N ASN B 22 1555 1555 1.36 LINK C LEU B 23 N AIB B 24 1555 1555 1.36 LINK C AIB B 24 N PRO B 25 1555 1555 1.32 LINK C VAL B 27 N AIB B 28 1555 1555 1.33 LINK C AIB B 28 N PRO B 29 1555 1555 1.31 LINK C PRO B 29 N AIB B 30 1555 1555 1.33 LINK C AIB B 30 N LEU B 31 1555 1555 1.32 LINK C LEU B 31 N AIB B 32 1555 1555 1.26 LINK C AIB B 32 N PRO B 33 1555 1555 1.36 LINK C PRO B 33 N DCL B 34 1555 1555 1.31 SITE 1 AC1 1 CCN A 75 SITE 1 AC2 2 ACE A 0 CCN A 74 CRYST1 24.284 9.896 37.567 90.00 97.15 90.00 P 1 21 1 4 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 0.041179 0.000000 0.005166 0.00000 SCALE2 0.000000 0.101051 0.000000 0.00000 SCALE3 0.000000 0.000000 0.026828 0.00000 HETATM 1 C ACE A 0 30.064 -4.059 33.163 1.00 14.99 C ANISOU 1 C ACE A 0 1058 3625 1014 -98 -79 463 C HETATM 2 O ACE A 0 28.877 -4.031 33.548 1.00 13.62 O ANISOU 2 O ACE A 0 1089 2904 1182 -102 198 139 O HETATM 3 CH3 ACE A 0 31.113 -4.653 34.027 1.00 19.02 C ANISOU 3 CH3 ACE A 0 1374 4603 1251 200 -205 825 C HETATM 4 H1 ACE A 0 31.146 -4.181 34.862 1.00 28.54 H HETATM 5 H2 ACE A 0 31.965 -4.587 33.588 1.00 28.54 H HETATM 6 H3 ACE A 0 30.909 -5.577 34.190 1.00 28.54 H HETATM 7 N AIB A 1 30.422 -3.788 31.907 1.00 13.24 N ANISOU 7 N AIB A 1 906 3066 1059 292 10 503 N HETATM 8 CA AIB A 1 29.530 -3.230 30.966 1.00 12.71 C ANISOU 8 CA AIB A 1 901 2634 1292 288 112 743 C HETATM 9 C AIB A 1 28.276 -4.107 30.765 1.00 10.21 C ANISOU 9 C AIB A 1 980 2046 854 543 171 338 C HETATM 10 O AIB A 1 27.160 -3.638 30.485 1.00 9.83 O ANISOU 10 O AIB A 1 949 1848 940 418 33 203 O HETATM 11 CB1 AIB A 1 30.261 -3.205 29.613 1.00 17.04 C ANISOU 11 CB1 AIB A 1 1310 3925 1239 366 114 947 C HETATM 12 CB2 AIB A 1 29.078 -1.824 31.457 1.00 14.91 C ANISOU 12 CB2 AIB A 1 1264 2468 1934 -57 -8 740 C HETATM 13 H AIB A 1 31.228 -3.960 31.661 1.00 15.89 H HETATM 14 HB11 AIB A 1 30.512 -4.099 29.368 1.00 25.56 H HETATM 15 HB12 AIB A 1 31.048 -2.660 29.685 1.00 25.56 H HETATM 16 HB13 AIB A 1 29.680 -2.841 28.941 1.00 25.56 H HETATM 17 HB21 AIB A 1 28.629 -1.908 32.301 1.00 22.36 H HETATM 18 HB22 AIB A 1 28.480 -1.437 30.813 1.00 22.36 H HETATM 19 HB23 AIB A 1 29.847 -1.258 31.558 1.00 22.36 H