HEADER ANTIBIOTIC 30-OCT-18 6MXF
TITLE MICROED STRUCTURE OF THIOSTREPTON AT 1.9 A RESOLUTION
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: THIOSTREPTON;
COMPND 3 CHAIN: A;
COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 SYNTHETIC: YES;
SOURCE 3 ORGANISM_SCIENTIFIC: STREPTOMYCES AZUREUS;
SOURCE 4 ORGANISM_TAXID: 146537
KEYWDS ANTIBIOTIC
EXPDTA ELECTRON CRYSTALLOGRAPHY
AUTHOR C.G.JONES,M.W.MARTYNOWYCZ,J.HATTNE,T.FULTON,B.M.STOLTZ,J.A.RODRIGUEZ,
AUTHOR 2 H.M.NELSON,T.GONEN
REVDAT 6 15-NOV-23 6MXF 1 LINK
REVDAT 5 11-OCT-23 6MXF 1 REMARK LINK
REVDAT 4 27-NOV-19 6MXF 1 SEQRES
REVDAT 3 06-FEB-19 6MXF 1 DBREF
REVDAT 2 02-JAN-19 6MXF 1 JRNL REMARK SITE
REVDAT 1 21-NOV-18 6MXF 0
JRNL AUTH C.G.JONES,M.W.MARTYNOWYCZ,J.HATTNE,T.J.FULTON,B.M.STOLTZ,
JRNL AUTH 2 J.A.RODRIGUEZ,H.M.NELSON,T.GONEN
JRNL TITL THE CRYOEM METHOD MICROED AS A POWERFUL TOOL FOR SMALL
JRNL TITL 2 MOLECULE STRUCTURE DETERMINATION.
JRNL REF ACS CENT SCI V. 4 1587 2018
JRNL REFN ESSN 2374-7943
JRNL PMID 30555912
JRNL DOI 10.1021/ACSCENTSCI.8B00760
REMARK 2
REMARK 2 RESOLUTION. 1.91 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : REFMAC 5.8.0238
REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER,
REMARK 3 : NICHOLLS,WINN,LONG,VAGIN
REMARK 3
REMARK 3 REFINEMENT TARGET : NULL
REMARK 3
REMARK 3 DATA USED IN REFINEMENT.
REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.91
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.99
REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL
REMARK 3 COMPLETENESS FOR RANGE (%) : 78.2
REMARK 3 NUMBER OF REFLECTIONS : 620
REMARK 3
REMARK 3 FIT TO DATA USED IN REFINEMENT.
REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT
REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM
REMARK 3 R VALUE (WORKING + TEST SET) : 0.193
REMARK 3 R VALUE (WORKING SET) : 0.190
REMARK 3 FREE R VALUE : 0.218
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.400
REMARK 3 FREE R VALUE TEST SET COUNT : 57
REMARK 3
REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN.
REMARK 3 TOTAL NUMBER OF BINS USED : 20
REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.92
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.96
REMARK 3 REFLECTION IN BIN (WORKING SET) : 2
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 3.33
REMARK 3 BIN R VALUE (WORKING SET) : 0.1820
REMARK 3 BIN FREE R VALUE SET COUNT : 0
REMARK 3 BIN FREE R VALUE : 0.0000
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 114
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 0
REMARK 3 SOLVENT ATOMS : 2
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 6.81
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : 0.18000
REMARK 3 B22 (A**2) : 0.18000
REMARK 3 B33 (A**2) : -0.37000
REMARK 3 B12 (A**2) : 0.00000
REMARK 3 B13 (A**2) : 0.00000
REMARK 3 B23 (A**2) : 0.00000
REMARK 3
REMARK 3 ESTIMATED OVERALL COORDINATE ERROR.
REMARK 3 ESU BASED ON R VALUE (A): 0.352
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.202
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.098
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.282
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.931
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 123 ; 0.015 ; 0.017
REMARK 3 BOND LENGTHS OTHERS (A): 107 ; 0.025 ; 0.018
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 120 ; 2.760 ; 2.241
REMARK 3 BOND ANGLES OTHERS (DEGREES): 213 ; 1.374 ; 2.283
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 3 ; 3.623 ; 5.000
REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL
REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 4 ; 7.901 ;15.000
REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL
REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 15 ; 0.062 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 135 ; 0.010 ; 0.020
REMARK 3 GENERAL PLANES OTHERS (A): 49 ; 0.003 ; 0.020
REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL
REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL
REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL
REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL
REMARK 3
REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT
REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 62 ; 0.625 ; 0.798
REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 63 ; 0.620 ; 0.810
REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 37 ; 0.893 ; 1.194
REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 38 ; 0.881 ; 1.223
REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 60 ; 0.609 ; 0.743
REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 61 ; 0.604 ; 0.754
REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 84 ; 0.892 ; 1.161
REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 101 ; 1.546 ;10.960
REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 102 ; 1.539 ;10.959
REMARK 3
REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT
REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL
REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3
REMARK 3 NCS RESTRAINTS STATISTICS
REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : NULL
REMARK 3
REMARK 3 BULK SOLVENT MODELLING.
REMARK 3 METHOD USED : NULL
REMARK 3 PARAMETERS FOR MASK CALCULATION
REMARK 3 VDW PROBE RADIUS : 1.20
REMARK 3 ION PROBE RADIUS : 0.80
REMARK 3 SHRINKAGE RADIUS : 0.80
REMARK 3
REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING
REMARK 3 POSITIONS
REMARK 4
REMARK 4 6MXF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-OCT-18.
REMARK 100 THE DEPOSITION ID IS D_1000237739.
REMARK 240
REMARK 240 EXPERIMENTAL DETAILS
REMARK 240 RECONSTRUCTION METHOD : CRYSTALLOGRAPHY
REMARK 240 SAMPLE TYPE : 3D ARRAY
REMARK 240 SPECIMEN TYPE : NULL
REMARK 240 DATA ACQUISITION
REMARK 240 DATE OF DATA COLLECTION : 03-OCT-18
REMARK 240 TEMPERATURE (KELVIN) : NULL
REMARK 240 PH : NULL
REMARK 240 NUMBER OF CRYSTALS USED : NULL
REMARK 240 MICROSCOPE MODEL : FEI TALOS ARCTICA
REMARK 240 DETECTOR TYPE : FEI CETA (4K X 4K)
REMARK 240 ACCELERATION VOLTAGE (KV) : 200
REMARK 240 NUMBER OF UNIQUE REFLECTIONS : 686
REMARK 240 RESOLUTION RANGE HIGH (A) : 1.900
REMARK 240 RESOLUTION RANGE LOW (A) : 18.990
REMARK 240 DATA SCALING SOFTWARE : AIMLESS 0.7.3
REMARK 240 COMPLETENESS FOR RANGE (%) : 78.6
REMARK 240 DATA REDUNDANCY : 8.100
REMARK 240 IN THE HIGHEST RESOLUTION SHELL
REMARK 240 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) :1.90
REMARK 240 HIGHEST RESOLUTION SHELL, RANGE LOW (A) :2.13
REMARK 240 COMPLETENESS FOR SHELL (%) : 40.3
REMARK 240 DATA REDUNDANCY IN SHELL : 4.90
REMARK 240 R MERGE FOR SHELL (I) : 0.32000
REMARK 240 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT
REMARK 240 SOFTWARE USED : MOLREP 11.6.04
REMARK 240 STARTING MODEL : 1E9W
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2
REMARK 290
REMARK 290 SYMOP SYMMETRY
REMARK 290 NNNMMM OPERATOR
REMARK 290 1555 X,Y,Z
REMARK 290 2555 -X,-Y,Z+1/2
REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4
REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4
REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4
REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4
REMARK 290 7555 Y,X,-Z
REMARK 290 8555 -Y,-X,-Z+1/2
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 0.00000
REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 13.76700
REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 13.10950
REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 13.10950
REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 20.65050
REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 13.10950
REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 13.10950
REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 6.88350
REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 13.10950
REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 13.10950
REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 20.65050
REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 13.10950
REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 13.10950
REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 6.88350
REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 13.76700
REMARK 290
REMARK 290 REMARK: NULL
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: 400 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 1690 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 1.0 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 400
REMARK 400 COMPOUND
REMARK 400 THIOSTREPTON IS A MEMBER OF A SULPHUR-RICH HETEROCYCLIC PEPTIDES
REMARK 400 CLASS. ALL SHARE A MACROCYLIC CORE, CONSISTING OF A
REMARK 400 NITROGEN CONTAINING, SIX-MEMBERED RING CENTRAL TO DEHYDROAMINO
REMARK 400 ACIDS AND A SUBSET OF FIVE MEMBER RING STRUCTURES INCLUDING
REMARK 400 THIAZOLES, THIAZOLINES AND OXAZOLES.
REMARK 400 HERE, THIOSTREPTON IS REPRESENTED BY THE SEQUENCE (SEQRES)
REMARK 400
REMARK 400 THE THIOSTREPTON IS THIOPEPTIDE, A MEMBER OF ANTIBIOTIC CLASS.
REMARK 400
REMARK 400 GROUP: 1
REMARK 400 NAME: THIOSTREPTON
REMARK 400 CHAIN: A
REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER
REMARK 400 DESCRIPTION: Thiostrepton is a hetrocyclic thiopeptide belonging
REMARK 400 to the thiocillin family, consisting of four
REMARK 400 thiazole, one thiozoline and one piperideine rings.
REMARK 400 A modified quinoline linked to main-chain residue 1
REMARK 400 and side-chain of residue 12. Post translational
REMARK 400 maturation of thiazole and oxazole containing
REMARK 400 antibiotics involves the enzymic condensation of a
REMARK 400 Cys or Ser with the alpha-carbonyl of the preceding
REMARK 400 amino acid to form a thioether or ether bond, then
REMARK 400 dehydration to form a double bond with the alpha-
REMARK 400 amino nitrogen. Thiazoline or oxazoline ring are
REMARK 400 dehydrogenated to form thiazole or oxazole rings.
REMARK 400 the pyridinyl involves the cross-linking of a Ser
REMARK 400 and a Cys-Ser pair usually separated by 7 or 8
REMARK 400 residues along the peptide chain. The Ser residues
REMARK 400 are dehydrated to didehydroalanines, then bonded
REMARK 400 between their beta carbons. The alpha carbonyl of
REMARK 400 the Cys condenses with alpha carbon of the first Ser
REMARK 400 to form a pyridinyl ring. The ring may be mutiply
REMARK 400 dehydrogenated to form a pyridine ring with loss of
REMARK 400 the amino nitrogen of the first Ser. The amidation
REMARK 400 of Ser-17 probably does not occur by the same
REMARK 400 mechanism, oxidative cleavage of glycine, as in
REMARK 400 eukaryotes.
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT
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 O12 QUA A 0 OG1 THR A 12 2.13
REMARK 500
REMARK 500 REMARK: 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 DHA A 16 C - N - CA ANGL. DEV. = 23.9 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 SER A 5 77.93 63.70
REMARK 500 DCY A 9 -2.00 -135.15
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS
REMARK 500
REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH
REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED
REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND
REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES.
REMARK 500 MODEL OMEGA
REMARK 500 BB9 A 13 MH6 A 14 145.15
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY
REMARK 500
REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY
REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER
REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME;
REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER;
REMARK 500 I=INSERTION CODE).
REMARK 500
REMARK 500 M RES CSSEQI ANGLE
REMARK 500 BB9 A 6 14.10
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 THIOSTREPTON chain A
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: EMD-9292 RELATED DB: EMDB
REMARK 900 MICROED STRUCTURE OF THIOSTREPTON AT 1.9 A RESOLUTION
REMARK 900 RELATED ID: EMD-9291 RELATED DB: EMDB
REMARK 900 RELATED ID: EMD-9290 RELATED DB: EMDB
REMARK 900 RELATED ID: EMD-9282 RELATED DB: EMDB
REMARK 900 RELATED ID: EMD-9283 RELATED DB: EMDB
REMARK 900 RELATED ID: EMD-9284 RELATED DB: EMDB
REMARK 900 RELATED ID: EMD-9285 RELATED DB: EMDB
REMARK 900 RELATED ID: EMD-9286 RELATED DB: EMDB
REMARK 900 RELATED ID: EMD-9287 RELATED DB: EMDB
REMARK 900 RELATED ID: EMD-9288 RELATED DB: EMDB
REMARK 900 RELATED ID: EMD-9289 RELATED DB: EMDB
DBREF 6MXF A 0 18 PDB 6MXF 6MXF 0 18
SEQRES 1 A 19 QUA ILE ALA DHA ALA SER BB9 THR DBU DCY TS9 BB9 THR
SEQRES 2 A 19 BB9 MH6 BB9 DHA DHA NH2
HET QUA A 0 16
HET DHA A 3 5
HET BB9 A 6 6
HET DBU A 8 5
HET DCY A 9 6
HET TS9 A 10 9
HET BB9 A 11 6
HET BB9 A 13 5
HET MH6 A 14 4
HET BB9 A 15 6
HET DHA A 16 5
HET DHA A 17 5
HET NH2 A 18 1
HETNAM QUA 8-HYDROXY-4-(1-HYDROXYETHYL)QUINOLINE-2-CARBOXYLIC ACID
HETNAM DHA 2-AMINO-ACRYLIC ACID
HETNAM BB9 (2Z)-2-AMINO-3-SULFANYLPROP-2-ENOIC ACID
HETNAM DBU (2Z)-2-AMINOBUT-2-ENOIC ACID
HETNAM DCY D-CYSTEINE
HETNAM TS9 (2S,3S,4R)-2-AMINO-3,4-DIHYDROXY-3-METHYLPENTANOIC ACID
HETNAM MH6 3-HYDROXY-2-IMINOPROPANOIC ACID
HETNAM NH2 AMINO GROUP
HETSYN DHA 2,3-DIDEHYDROALANINE
HETSYN DBU Z-DEHYDROBUTYRINE
FORMUL 1 QUA C12 H13 N O4
FORMUL 1 DHA 3(C3 H5 N O2)
FORMUL 1 BB9 4(C3 H5 N O2 S)
FORMUL 1 DBU C4 H7 N O2
FORMUL 1 DCY C3 H7 N O2 S
FORMUL 1 TS9 C6 H13 N O4
FORMUL 1 MH6 C3 H5 N O3
FORMUL 1 NH2 H2 N
FORMUL 2 HOH *2(H2 O)
LINK C7 QUA A 0 N ILE A 1 1555 1555 1.55
LINK C11 QUA A 0 OG1 THR A 12 1555 1555 1.31
LINK C ALA A 2 N DHA A 3 1555 1555 1.35
LINK C DHA A 3 N ALA A 4 1555 1555 1.42
LINK C SER A 5 N BB9 A 6 1555 1555 1.34
LINK C SER A 5 SG BB9 A 6 1555 1555 1.72
LINK CA SER A 5 C BB9 A 13 1555 1555 1.51
LINK CB SER A 5 CB MH6 A 14 1555 1555 1.58
LINK C BB9 A 6 N THR A 7 1555 1555 1.42
LINK C THR A 7 N DBU A 8 1555 1555 1.36
LINK C DBU A 8 SG DCY A 9 1555 1555 1.72
LINK C DBU A 8 N DCY A 9 1555 1555 1.41
LINK C DCY A 9 N TS9 A 10 1555 1555 1.35
LINK C TS9 A 10 SG BB9 A 11 1555 1555 1.71
LINK C TS9 A 10 N BB9 A 11 1555 1555 1.33
LINK C BB9 A 11 N THR A 12 1555 1555 1.39
LINK C THR A 12 SG BB9 A 13 1555 1555 1.71
LINK C THR A 12 N BB9 A 13 1555 1555 1.33
LINK C BB9 A 13 N MH6 A 14 1555 1555 1.38
LINK C MH6 A 14 N BB9 A 15 1555 1555 1.34
LINK C MH6 A 14 SG BB9 A 15 1555 1555 1.68
LINK C BB9 A 15 N DHA A 16 1555 1555 1.34
LINK C DHA A 16 N DHA A 17 1555 1555 1.39
LINK C DHA A 17 N NH2 A 18 1555 1555 1.28
SITE 1 AC1 2 HOH A 101 HOH A 102
CRYST1 26.219 26.219 27.534 90.00 90.00 90.00 P 43 21 2 8
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 0.038140 0.000000 0.000000 0.00000
SCALE2 0.000000 0.038140 0.000000 0.00000
SCALE3 0.000000 0.000000 0.036319 0.00000
HETATM 1 O12 QUA A 0 10.846 5.950 -3.568 1.00 5.38 O
HETATM 2 C11 QUA A 0 9.756 5.430 -3.418 1.00 5.55 C
HETATM 3 C2 QUA A 0 9.569 3.950 -3.605 1.00 6.27 C
HETATM 4 N1 QUA A 0 8.323 3.479 -3.469 1.00 6.37 N
HETATM 5 C3 QUA A 0 10.644 3.163 -3.979 1.00 6.46 C
HETATM 6 C9 QUA A 0 8.090 2.191 -3.746 1.00 6.39 C
HETATM 7 C4 QUA A 0 10.418 1.813 -4.212 1.00 6.67 C
HETATM 8 C8 QUA A 0 6.630 1.779 -3.753 1.00 6.46 C
HETATM 9 C10 QUA A 0 9.113 1.302 -4.110 1.00 6.56 C
HETATM 10 O16 QUA A 0 6.068 1.903 -5.062 1.00 6.25 O
HETATM 11 C7 QUA A 0 6.526 0.325 -3.301 1.00 6.74 C
HETATM 12 C13 QUA A 0 11.569 0.863 -4.484 1.00 6.78 C
HETATM 13 O15 QUA A 0 12.634 1.475 -5.206 1.00 7.06 O
HETATM 14 C5 QUA A 0 8.784 -0.089 -4.285 1.00 6.50 C
HETATM 15 C14 QUA A 0 12.092 0.266 -3.210 1.00 6.98 C
HETATM 16 C6 QUA A 0 7.570 -0.536 -3.956 1.00 6.51 C
ATOM 17 N ILE A 1 6.536 -0.046 -1.799 1.00 7.73 N
ATOM 18 CA ILE A 1 5.563 0.737 -0.968 1.00 7.86 C
ATOM 19 C ILE A 1 6.255 1.917 -0.265 1.00 7.83 C
ATOM 20 O ILE A 1 5.548 2.757 0.275 1.00 7.34 O
ATOM 21 CB ILE A 1 4.846 -0.166 0.056 1.00 8.34 C
ATOM 22 CG1 ILE A 1 5.850 -0.751 1.058 1.00 8.54 C
ATOM 23 CG2 ILE A 1 4.004 -1.220 -0.650 1.00 8.28 C
ATOM 24 CD1 ILE A 1 5.230 -1.487 2.230 1.00 8.80 C
ATOM 25 N ALA A 2 7.586 1.945 -0.214 1.00 7.97 N
ATOM 26 CA ALA A 2 8.348 3.093 0.318 1.00 8.02 C
ATOM 27 C ALA A 2 9.792 3.023 -0.191 1.00 7.48 C
ATOM 28 O ALA A 2 10.206 1.927 -0.550 1.00 7.19 O
ATOM 29 CB ALA A 2 8.293 3.122 1.823 1.00 8.08 C
HETATM 30 N DHA A 3 10.440 4.201 -0.080 1.00 6.39 N
HETATM 31 CA DHA A 3 11.606 4.576 -0.640 1.00 6.07 C
HETATM 32 CB DHA A 3 12.572 3.701 -0.913 1.00 5.81 C
HETATM 33 C DHA A 3 11.707 6.012 -0.922 1.00 5.70 C
HETATM 34 O DHA A 3 10.688 6.662 -0.582 1.00 5.67 O
ATOM 35 N ALA A 4 12.950 6.615 -1.269 1.00 5.17 N
ATOM 36 CA ALA A 4 13.040 7.928 -1.954 1.00 5.05 C
ATOM 37 C ALA A 4 13.658 7.730 -3.347 1.00 5.05 C
ATOM 38 O ALA A 4 14.744 7.150 -3.427 1.00 4.98 O
ATOM 39 CB ALA A 4 13.860 8.885 -1.122 1.00 5.08 C
ATOM 40 N SER A 5 13.019 8.291 -4.380 1.00 5.06 N
ATOM 41 CA SER A 5 13.428 8.204 -5.807 1.00 5.18 C
ATOM 42 C SER A 5 13.368 6.747 -6.304 1.00 5.10 C
ATOM 43 CB SER A 5 14.812 8.807 -5.984 1.00 5.63 C
HETATM 44 N BB9 A 6 12.292 6.028 -6.664 1.00 4.98 N
HETATM 45 CA BB9 A 6 12.535 4.769 -7.023 1.00 5.01 C
HETATM 46 C BB9 A 6 11.542 3.868 -7.573 1.00 4.99 C
HETATM 47 O BB9 A 6 11.628 2.663 -7.295 1.00 4.90 O
HETATM 48 CB BB9 A 6 13.785 4.396 -6.782 1.00 5.16 C
HETATM 49 SG BB9 A 6 14.688 5.664 -6.084 1.00 5.00 S
ATOM 50 N THR A 7 10.301 4.501 -7.857 1.00 5.32 N
ATOM 51 CA THR A 7 9.102 3.767 -8.259 1.00 5.40 C
ATOM 52 C THR A 7 8.444 4.551 -9.398 1.00 5.72 C
ATOM 53 O THR A 7 8.763 5.760 -9.558 1.00 5.34 O
ATOM 54 CB THR A 7 8.206 3.517 -7.033 1.00 5.43 C
ATOM 55 OG1 THR A 7 7.218 2.536 -7.355 1.00 5.43 O
ATOM 56 CG2 THR A 7 7.506 4.766 -6.534 1.00 5.56 C
HETATM 57 N DBU A 8 7.345 4.161 -10.090 1.00 6.64 N
HETATM 58 CA DBU A 8 6.567 4.862 -10.920 1.00 6.72 C
HETATM 59 CB DBU A 8 7.054 5.379 -12.070 1.00 7.02 C
HETATM 60 CG DBU A 8 8.490 5.160 -12.530 1.00 7.08 C
HETATM 61 C DBU A 8 5.153 5.100 -10.618 1.00 7.34 C
HETATM 62 N DCY A 9 4.604 4.402 -9.518 1.00 8.16 N
HETATM 63 CA DCY A 9 3.163 4.403 -9.614 1.00 8.49 C
HETATM 64 C DCY A 9 2.485 4.728 -8.275 1.00 9.26 C
HETATM 65 O DCY A 9 1.240 4.758 -8.286 1.00 9.42 O
HETATM 66 CB DCY A 9 2.775 5.393 -10.698 1.00 8.31 C
HETATM 67 SG DCY A 9 4.103 5.543 -11.905 1.00 7.60 S
HETATM 68 N TS9 A 10 3.231 4.932 -7.175 1.00 9.21 N
HETATM 69 CA TS9 A 10 2.644 5.261 -5.845 1.00 9.94 C
HETATM 70 C TS9 A 10 3.047 6.676 -5.398 1.00 8.20 C
HETATM 71 CB TS9 A 10 2.939 4.176 -4.798 1.00 10.91 C
HETATM 72 OG3 TS9 A 10 4.363 4.010 -4.756 1.00 11.48 O
HETATM 73 CG2 TS9 A 10 2.489 4.637 -3.413 1.00 11.34 C
HETATM 74 CG1 TS9 A 10 2.251 2.864 -5.257 1.00 12.21 C
HETATM 75 OD2 TS9 A 10 0.827 3.035 -5.400 1.00 12.20 O
HETATM 76 CD1 TS9 A 10 2.500 1.710 -4.306 1.00 12.61 C
HETATM 77 N BB9 A 11 4.312 7.001 -5.147 1.00 6.87 N
HETATM 78 CA BB9 A 11 4.502 8.323 -5.118 1.00 6.56 C
HETATM 79 C BB9 A 11 5.814 8.913 -4.817 1.00 5.98 C
HETATM 80 O BB9 A 11 6.055 10.127 -4.989 1.00 6.29 O
HETATM 81 CB BB9 A 11 3.403 9.032 -5.430 1.00 6.52 C
HETATM 82 SG BB9 A 11 2.070 8.044 -5.706 1.00 6.50 S
ATOM 83 N THR A 12 6.872 8.037 -4.580 1.00 5.28 N
ATOM 84 CA THR A 12 8.243 8.480 -4.163 1.00 4.99 C
ATOM 85 C THR A 12 9.150 8.418 -5.392 1.00 4.75 C
ATOM 86 CB THR A 12 8.735 7.628 -2.997 1.00 5.05 C
ATOM 87 OG1 THR A 12 8.745 6.259 -3.416 1.00 5.11 O
ATOM 88 CG2 THR A 12 7.869 7.776 -1.759 1.00 5.19 C
HETATM 89 N BB9 A 13 10.438 8.693 -5.242 1.00 4.68 N
HETATM 90 CA BB9 A 13 11.025 8.757 -6.413 1.00 4.73 C
HETATM 91 C BB9 A 13 12.462 9.086 -6.566 1.00 5.14 C
HETATM 92 CB BB9 A 13 10.179 8.514 -7.428 1.00 4.65 C
HETATM 93 SG BB9 A 13 8.570 8.233 -6.992 1.00 4.36 S
HETATM 94 N MH6 A 14 12.677 10.395 -6.191 1.00 5.74 N
HETATM 95 CA MH6 A 14 13.704 10.877 -5.607 1.00 5.72 C
HETATM 96 C MH6 A 14 13.803 12.303 -5.171 1.00 9.27 C
HETATM 97 CB MH6 A 14 15.011 10.219 -5.309 1.00 5.95 C
HETATM 98 N BB9 A 15 14.625 12.665 -4.176 1.00 11.23 N
HETATM 99 CA BB9 A 15 14.458 13.946 -3.941 1.00 11.87 C
HETATM 100 C BB9 A 15 15.449 14.750 -3.201 1.00 12.66 C
HETATM 101 O BB9 A 15 15.078 15.904 -2.867 1.00 13.48 O
HETATM 102 CB BB9 A 15 13.347 14.425 -4.459 1.00 11.78 C
HETATM 103 SG BB9 A 15 12.434 13.267 -5.281 1.00 11.74 S
HETATM 104 N DHA A 16 16.710 14.367 -2.976 1.00 14.44 N
HETATM 105 CA DHA A 16 17.908 14.746 -2.561 1.00 15.77 C
HETATM 106 CB DHA A 16 17.955 15.671 -1.613 1.00 18.20 C
HETATM 107 C DHA A 16 19.124 14.169 -3.134 1.00 16.09 C
HETATM 108 O DHA A 16 19.041 13.635 -4.287 1.00 15.91 O
HETATM 109 N DHA A 17 20.286 14.114 -2.382 1.00 15.70 N
HETATM 110 CA DHA A 17 21.522 13.704 -2.713 1.00 15.41 C
HETATM 111 CB DHA A 17 21.709 12.667 -3.524 1.00 15.59 C
HETATM 112 C DHA A 17 22.719 14.354 -2.172 1.00 14.77 C
HETATM 113 O DHA A 17 22.595 14.984 -1.101 1.00 14.89 O
HETATM 114 N NH2 A 18 23.856 14.504 -2.745 1.00 14.10 N
TER 115 NH2 A 18
HETATM 116 O HOH A 101 5.403 5.113 0.255 0.50 4.25 O
HETATM 117 O HOH A 102 5.975 5.285 -2.864 1.00 12.00 O
CONECT 1 2
CONECT 2 1 3 87
CONECT 3 2 4 5
CONECT 4 3 6
CONECT 5 3 7
CONECT 6 4 8 9
CONECT 7 5 9 12
CONECT 8 6 10 11
CONECT 9 6 7 14
CONECT 10 8
CONECT 11 8 16 17
CONECT 12 7 13 15
CONECT 13 12
CONECT 14 9 16
CONECT 15 12
CONECT 16 11 14
CONECT 17 11
CONECT 27 30
CONECT 30 27 31
CONECT 31 30 32 33
CONECT 32 31
CONECT 33 31 34 35
CONECT 34 33
CONECT 35 33
CONECT 41 91
CONECT 42 44 49
CONECT 43 97
CONECT 44 42 45
CONECT 45 44 46 48
CONECT 46 45 47 50
CONECT 47 46
CONECT 48 45 49
CONECT 49 42 48
CONECT 50 46
CONECT 52 57
CONECT 57 52 58
CONECT 58 57 59 61
CONECT 59 58 60
CONECT 60 59
CONECT 61 58 62 67
CONECT 62 61 63
CONECT 63 62 64 66
CONECT 64 63 65 68
CONECT 65 64
CONECT 66 63 67
CONECT 67 61 66
CONECT 68 64 69
CONECT 69 68 70 71
CONECT 70 69 77 82
CONECT 71 69 72 73 74
CONECT 72 71
CONECT 73 71
CONECT 74 71 75 76
CONECT 75 74
CONECT 76 74
CONECT 77 70 78
CONECT 78 77 79 81
CONECT 79 78 80 83
CONECT 80 79
CONECT 81 78 82
CONECT 82 70 81
CONECT 83 79
CONECT 85 89 93
CONECT 87 2
CONECT 89 85 90
CONECT 90 89 91 92
CONECT 91 41 90 94
CONECT 92 90 93
CONECT 93 85 92
CONECT 94 91 95
CONECT 95 94 96 97
CONECT 96 95 98 103
CONECT 97 43 95
CONECT 98 96 99
CONECT 99 98 100 102
CONECT 100 99 101 104
CONECT 101 100
CONECT 102 99 103
CONECT 103 96 102
CONECT 104 100 105
CONECT 105 104 106 107
CONECT 106 105
CONECT 107 105 108 109
CONECT 108 107
CONECT 109 107 110
CONECT 110 109 111 112
CONECT 111 110
CONECT 112 110 113 114
CONECT 113 112
CONECT 114 112
MASTER 359 0 13 0 0 0 1 6 116 1 90 2
END