HEADER PERIPLASMIC BINDING PROTEIN 12-SEP-16 5LV1 TITLE 2.12 A RESOLUTION STRUCTURE OF PTXB FROM PROCHLOROCOCCUS MARINUS (MIT TITLE 2 9301) IN COMPLEX WITH PHOSPHITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PTXB; COMPND 3 CHAIN: A, C, B; COMPND 4 FRAGMENT: UNP RESIDUES 22-292; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: TRUNCATED AT THE N-TERMINUS TO REMOVE A SIGNAL COMPND 7 PEPTIDE. C-TERMINAL HIS-TAG SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PROCHLOROCOCCUS MARINUS (STRAIN MIT 9301); SOURCE 3 ORGANISM_TAXID: 167546; SOURCE 4 GENE: P9301_12511; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS ABC-TRANSPORTER, PHOSPHITE, PROCHLOROCOCCUS, PERIPLASMIC BINDING KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.BISSON,N.B.P.ADAMS,D.POLYVIOU,T.S.BIBBY,C.N.HUNTER,A.HITCHCOCK REVDAT 4 13-NOV-24 5LV1 1 REMARK REVDAT 3 17-JAN-24 5LV1 1 REMARK REVDAT 2 24-JAN-18 5LV1 1 SOURCE REVDAT 1 06-DEC-17 5LV1 0 JRNL AUTH C.BISSON,N.B.P.ADAMS,B.STEVENSON,A.A.BRINDLEY,D.POLYVIOU, JRNL AUTH 2 T.S.BIBBY,P.J.BAKER,C.N.HUNTER,A.HITCHCOCK JRNL TITL THE MOLECULAR BASIS OF PHOSPHITE AND HYPOPHOSPHITE JRNL TITL 2 RECOGNITION BY ABC-TRANSPORTERS. JRNL REF NAT COMMUN V. 8 1746 2017 JRNL REFN ESSN 2041-1723 JRNL PMID 29170493 JRNL DOI 10.1038/S41467-017-01226-8 REMARK 2 REMARK 2 RESOLUTION. 2.12 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0151 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) : 2.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 131.79 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 48734 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) : 0.220 REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.264 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2541 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) : 2.12 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.18 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3549 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.20 REMARK 3 BIN R VALUE (WORKING SET) : 0.3410 REMARK 3 BIN FREE R VALUE SET COUNT : 177 REMARK 3 BIN FREE R VALUE : 0.4010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6006 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 123 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.22 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.25000 REMARK 3 B22 (A**2) : 0.25000 REMARK 3 B33 (A**2) : -0.81000 REMARK 3 B12 (A**2) : 0.13000 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): 0.237 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.202 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.164 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.790 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.908 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6127 ; 0.011 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 5948 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8292 ; 1.465 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13788 ; 0.945 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 789 ; 5.892 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 238 ;41.866 ;25.462 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1078 ;13.094 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ; 9.122 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 964 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6856 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1239 ; 0.001 ; 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): 3165 ; 1.518 ; 2.874 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3164 ; 1.516 ; 2.873 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3951 ; 2.393 ; 4.301 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3952 ; 2.393 ; 4.302 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2961 ; 2.029 ; 3.156 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2962 ; 2.028 ; 3.155 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4342 ; 3.323 ; 4.615 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6344 ; 4.433 ;33.680 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6327 ; 4.420 ;33.672 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 5LV1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1200001414. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-SEP-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92819 REMARK 200 MONOCHROMATOR : SYNCHROTRON REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51504 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.120 REMARK 200 RESOLUTION RANGE LOW (A) : 131.790 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 19.10 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.12 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 15.70 REMARK 200 R MERGE FOR SHELL (I) : 0.73300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 5JVB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MAGNESIUM CHLORIDE, 0.1 M SODIUM REMARK 280 CITRATE PH 5.0 AND 15 % PEG 4000, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 283K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 22.63833 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 45.27667 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 45.27667 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 22.63833 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 THR A 3 REMARK 465 LYS A 4 REMARK 465 ASN A 5 REMARK 465 ALA A 6 REMARK 465 GLY A 7 REMARK 465 PRO A 8 REMARK 465 LEU A 273 REMARK 465 GLU A 274 REMARK 465 HIS A 275 REMARK 465 HIS A 276 REMARK 465 HIS A 277 REMARK 465 HIS A 278 REMARK 465 HIS A 279 REMARK 465 HIS A 280 REMARK 465 MET C 1 REMARK 465 SER C 2 REMARK 465 THR C 3 REMARK 465 LYS C 4 REMARK 465 ASN C 5 REMARK 465 ALA C 6 REMARK 465 GLY C 7 REMARK 465 PRO C 8 REMARK 465 LEU C 273 REMARK 465 GLU C 274 REMARK 465 HIS C 275 REMARK 465 HIS C 276 REMARK 465 HIS C 277 REMARK 465 HIS C 278 REMARK 465 HIS C 279 REMARK 465 HIS C 280 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 THR B 3 REMARK 465 LYS B 4 REMARK 465 ASN B 5 REMARK 465 ALA B 6 REMARK 465 GLY B 7 REMARK 465 PRO B 8 REMARK 465 LEU B 273 REMARK 465 GLU B 274 REMARK 465 HIS B 275 REMARK 465 HIS B 276 REMARK 465 HIS B 277 REMARK 465 HIS B 278 REMARK 465 HIS B 279 REMARK 465 HIS B 280 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 ASP A 11 63.56 -153.78 REMARK 500 PHE A 89 -17.64 -155.38 REMARK 500 ARG A 134 -62.43 -141.30 REMARK 500 LYS A 150 -45.58 -133.90 REMARK 500 ASP C 11 68.12 -152.77 REMARK 500 PHE C 89 -31.54 -150.53 REMARK 500 ARG C 134 -62.26 -143.18 REMARK 500 ASP C 232 27.20 -148.47 REMARK 500 PHE B 89 -28.10 -150.72 REMARK 500 ARG B 134 -66.56 -140.78 REMARK 500 ASP B 232 -28.93 -145.07 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 78T A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 78T C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 78T B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5JVB RELATED DB: PDB REMARK 900 THE STRUCTURE OF TRICHODESMIUN PTXB IN COMPLEX WITH PHOSPHITE REMARK 900 RELATED ID: 5LQ5 RELATED DB: PDB REMARK 900 THE STRUCTURE OF PROCHLOROCOCCUS PHND IN COMPLEX WITH PHOSPHITE DBREF 5LV1 A 2 272 UNP A3PDP9 A3PDP9_PROM0 22 292 DBREF 5LV1 C 2 272 UNP A3PDP9 A3PDP9_PROM0 22 292 DBREF 5LV1 B 2 272 UNP A3PDP9 A3PDP9_PROM0 22 292 SEQADV 5LV1 MET A 1 UNP A3PDP9 INITIATING METHIONINE SEQADV 5LV1 LEU A 273 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 GLU A 274 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS A 275 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS A 276 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS A 277 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS A 278 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS A 279 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS A 280 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 MET C 1 UNP A3PDP9 INITIATING METHIONINE SEQADV 5LV1 LEU C 273 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 GLU C 274 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS C 275 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS C 276 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS C 277 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS C 278 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS C 279 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS C 280 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 MET B 1 UNP A3PDP9 INITIATING METHIONINE SEQADV 5LV1 LEU B 273 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 GLU B 274 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS B 275 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS B 276 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS B 277 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS B 278 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS B 279 UNP A3PDP9 EXPRESSION TAG SEQADV 5LV1 HIS B 280 UNP A3PDP9 EXPRESSION TAG SEQRES 1 A 280 MET SER THR LYS ASN ALA GLY PRO SER ALA ASP PRO ASP SEQRES 2 A 280 LYS LEU ILE VAL ALA LEU ILE PRO ASP GLU ASN ALA ALA SEQRES 3 A 280 THR VAL ILE GLN ASP ASN GLN GLY LEU LYS ASP TYR LEU SEQRES 4 A 280 THR GLU ALA PHE ASP LYS GLU ILE GLU LEU VAL VAL THR SEQRES 5 A 280 THR ASP TYR SER SER MET ILE GLU ALA ALA ARG ASN ASP SEQRES 6 A 280 ARG LEU ASP LEU ALA TYR PHE GLY PRO LEU SER TYR VAL SEQRES 7 A 280 LEU ALA LYS ALA VAL SER ASP ILE GLU PRO PHE ALA ALA SEQRES 8 A 280 ARG ILE LYS GLY GLY THR LYS THR TYR ASN SER CYS ILE SEQRES 9 A 280 ILE GLY ASN THR LYS LYS GLY VAL THR SER PHE ASP ASP SEQRES 10 A 280 ILE LYS GLY THR THR PHE ALA LEU GLY ASP PRO ALA SER SEQRES 11 A 280 THR SER SER ARG LEU PHE PRO GLU LEU THR LEU ALA GLU SEQRES 12 A 280 ASN GLY LEU THR LYS GLY LYS ASP PHE GLN GLY VAL PHE SEQRES 13 A 280 LEU GLY SER HIS ASP ALA VAL ALA LEU ALA VAL GLN ASN SEQRES 14 A 280 GLY ASN ALA GLN ALA GLY GLY MET ALA CYS PRO ILE LEU SEQRES 15 A 280 LYS SER LEU LYS LYS LYS GLY VAL ILE ASP PRO SER LYS SEQRES 16 A 280 VAL THR THR ILE ALA GLN SER SER PRO ILE PRO GLN TYR SEQRES 17 A 280 PRO TRP THR MET ARG SER THR LEU SER PRO GLU LEU LYS SEQRES 18 A 280 GLU LYS ILE ARG PHE THR PHE LEU ASP LEU ASP SER ASP SEQRES 19 A 280 LYS VAL LEU LYS PRO PHE ASN ALA ASP GLY PHE ALA SER SEQRES 20 A 280 ILE THR ASP SER ASP TYR ASP GLY ILE ARG LYS ALA GLY SEQRES 21 A 280 LYS LEU LEU GLY LEU ASP LEU SER LYS PHE VAL LYS LEU SEQRES 22 A 280 GLU HIS HIS HIS HIS HIS HIS SEQRES 1 C 280 MET SER THR LYS ASN ALA GLY PRO SER ALA ASP PRO ASP SEQRES 2 C 280 LYS LEU ILE VAL ALA LEU ILE PRO ASP GLU ASN ALA ALA SEQRES 3 C 280 THR VAL ILE GLN ASP ASN GLN GLY LEU LYS ASP TYR LEU SEQRES 4 C 280 THR GLU ALA PHE ASP LYS GLU ILE GLU LEU VAL VAL THR SEQRES 5 C 280 THR ASP TYR SER SER MET ILE GLU ALA ALA ARG ASN ASP SEQRES 6 C 280 ARG LEU ASP LEU ALA TYR PHE GLY PRO LEU SER TYR VAL SEQRES 7 C 280 LEU ALA LYS ALA VAL SER ASP ILE GLU PRO PHE ALA ALA SEQRES 8 C 280 ARG ILE LYS GLY GLY THR LYS THR TYR ASN SER CYS ILE SEQRES 9 C 280 ILE GLY ASN THR LYS LYS GLY VAL THR SER PHE ASP ASP SEQRES 10 C 280 ILE LYS GLY THR THR PHE ALA LEU GLY ASP PRO ALA SER SEQRES 11 C 280 THR SER SER ARG LEU PHE PRO GLU LEU THR LEU ALA GLU SEQRES 12 C 280 ASN GLY LEU THR LYS GLY LYS ASP PHE GLN GLY VAL PHE SEQRES 13 C 280 LEU GLY SER HIS ASP ALA VAL ALA LEU ALA VAL GLN ASN SEQRES 14 C 280 GLY ASN ALA GLN ALA GLY GLY MET ALA CYS PRO ILE LEU SEQRES 15 C 280 LYS SER LEU LYS LYS LYS GLY VAL ILE ASP PRO SER LYS SEQRES 16 C 280 VAL THR THR ILE ALA GLN SER SER PRO ILE PRO GLN TYR SEQRES 17 C 280 PRO TRP THR MET ARG SER THR LEU SER PRO GLU LEU LYS SEQRES 18 C 280 GLU LYS ILE ARG PHE THR PHE LEU ASP LEU ASP SER ASP SEQRES 19 C 280 LYS VAL LEU LYS PRO PHE ASN ALA ASP GLY PHE ALA SER SEQRES 20 C 280 ILE THR ASP SER ASP TYR ASP GLY ILE ARG LYS ALA GLY SEQRES 21 C 280 LYS LEU LEU GLY LEU ASP LEU SER LYS PHE VAL LYS LEU SEQRES 22 C 280 GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 280 MET SER THR LYS ASN ALA GLY PRO SER ALA ASP PRO ASP SEQRES 2 B 280 LYS LEU ILE VAL ALA LEU ILE PRO ASP GLU ASN ALA ALA SEQRES 3 B 280 THR VAL ILE GLN ASP ASN GLN GLY LEU LYS ASP TYR LEU SEQRES 4 B 280 THR GLU ALA PHE ASP LYS GLU ILE GLU LEU VAL VAL THR SEQRES 5 B 280 THR ASP TYR SER SER MET ILE GLU ALA ALA ARG ASN ASP SEQRES 6 B 280 ARG LEU ASP LEU ALA TYR PHE GLY PRO LEU SER TYR VAL SEQRES 7 B 280 LEU ALA LYS ALA VAL SER ASP ILE GLU PRO PHE ALA ALA SEQRES 8 B 280 ARG ILE LYS GLY GLY THR LYS THR TYR ASN SER CYS ILE SEQRES 9 B 280 ILE GLY ASN THR LYS LYS GLY VAL THR SER PHE ASP ASP SEQRES 10 B 280 ILE LYS GLY THR THR PHE ALA LEU GLY ASP PRO ALA SER SEQRES 11 B 280 THR SER SER ARG LEU PHE PRO GLU LEU THR LEU ALA GLU SEQRES 12 B 280 ASN GLY LEU THR LYS GLY LYS ASP PHE GLN GLY VAL PHE SEQRES 13 B 280 LEU GLY SER HIS ASP ALA VAL ALA LEU ALA VAL GLN ASN SEQRES 14 B 280 GLY ASN ALA GLN ALA GLY GLY MET ALA CYS PRO ILE LEU SEQRES 15 B 280 LYS SER LEU LYS LYS LYS GLY VAL ILE ASP PRO SER LYS SEQRES 16 B 280 VAL THR THR ILE ALA GLN SER SER PRO ILE PRO GLN TYR SEQRES 17 B 280 PRO TRP THR MET ARG SER THR LEU SER PRO GLU LEU LYS SEQRES 18 B 280 GLU LYS ILE ARG PHE THR PHE LEU ASP LEU ASP SER ASP SEQRES 19 B 280 LYS VAL LEU LYS PRO PHE ASN ALA ASP GLY PHE ALA SER SEQRES 20 B 280 ILE THR ASP SER ASP TYR ASP GLY ILE ARG LYS ALA GLY SEQRES 21 B 280 LYS LEU LEU GLY LEU ASP LEU SER LYS PHE VAL LYS LEU SEQRES 22 B 280 GLU HIS HIS HIS HIS HIS HIS HET 78T A 301 4 HET 78T C 301 4 HET 78T B 301 4 HETNAM 78T OXIDANYLPHOSPHINATE FORMUL 4 78T 3(H2 O3 P 1-) FORMUL 7 HOH *123(H2 O) HELIX 1 AA1 ASN A 24 ASN A 32 1 9 HELIX 2 AA2 ASN A 32 ASP A 44 1 13 HELIX 3 AA3 ASP A 54 ASN A 64 1 11 HELIX 4 AA4 GLY A 73 SER A 84 1 12 HELIX 5 AA5 SER A 114 LYS A 119 5 6 HELIX 6 AA6 ARG A 134 GLU A 143 1 10 HELIX 7 AA7 SER A 159 ASN A 169 1 11 HELIX 8 AA8 CYS A 179 LYS A 188 1 10 HELIX 9 AA9 SER A 217 LEU A 231 1 15 HELIX 10 AB1 SER A 233 LYS A 238 1 6 HELIX 11 AB2 PRO A 239 ASN A 241 5 3 HELIX 12 AB3 THR A 249 ASP A 252 5 4 HELIX 13 AB4 TYR A 253 GLY A 264 1 12 HELIX 14 AB5 ASP A 266 VAL A 271 1 6 HELIX 15 AB6 ASN C 24 ASN C 32 1 9 HELIX 16 AB7 ASN C 32 ASP C 44 1 13 HELIX 17 AB8 ASP C 54 ASN C 64 1 11 HELIX 18 AB9 GLY C 73 VAL C 83 1 11 HELIX 19 AC1 SER C 114 LYS C 119 5 6 HELIX 20 AC2 ARG C 134 ASN C 144 1 11 HELIX 21 AC3 SER C 159 GLY C 170 1 12 HELIX 22 AC4 CYS C 179 LYS C 188 1 10 HELIX 23 AC5 SER C 217 LEU C 231 1 15 HELIX 24 AC6 SER C 233 LYS C 238 1 6 HELIX 25 AC7 THR C 249 ASP C 252 5 4 HELIX 26 AC8 TYR C 253 GLY C 264 1 12 HELIX 27 AC9 ASP C 266 VAL C 271 1 6 HELIX 28 AD1 ASN B 24 ASN B 32 1 9 HELIX 29 AD2 ASN B 32 ASP B 44 1 13 HELIX 30 AD3 ASP B 54 ASN B 64 1 11 HELIX 31 AD4 GLY B 73 SER B 84 1 12 HELIX 32 AD5 PHE B 115 LYS B 119 5 5 HELIX 33 AD6 ARG B 134 ASN B 144 1 11 HELIX 34 AD7 SER B 159 ASN B 169 1 11 HELIX 35 AD8 CYS B 179 LYS B 188 1 10 HELIX 36 AD9 SER B 217 ASP B 230 1 14 HELIX 37 AE1 SER B 233 LYS B 238 1 6 HELIX 38 AE2 PRO B 239 ASN B 241 5 3 HELIX 39 AE3 THR B 249 ASP B 252 5 4 HELIX 40 AE4 TYR B 253 GLY B 264 1 12 HELIX 41 AE5 ASP B 266 VAL B 271 1 6 SHEET 1 AA1 6 GLU A 46 VAL A 51 0 SHEET 2 AA1 6 LYS A 14 LEU A 19 1 N VAL A 17 O GLU A 48 SHEET 3 AA1 6 LEU A 69 TYR A 71 1 O TYR A 71 N ALA A 18 SHEET 4 AA1 6 TRP A 210 ARG A 213 -1 O THR A 211 N ALA A 70 SHEET 5 AA1 6 ILE A 86 ILE A 93 -1 N ALA A 90 O TRP A 210 SHEET 6 AA1 6 GLY A 244 ALA A 246 -1 O ALA A 246 N ALA A 91 SHEET 1 AA2 2 THR A 99 TYR A 100 0 SHEET 2 AA2 2 ILE A 205 PRO A 206 -1 O ILE A 205 N TYR A 100 SHEET 1 AA3 5 GLN A 153 PHE A 156 0 SHEET 2 AA3 5 THR A 122 LEU A 125 1 N PHE A 123 O GLN A 153 SHEET 3 AA3 5 ALA A 174 ALA A 178 1 O ALA A 174 N ALA A 124 SHEET 4 AA3 5 SER A 102 ASN A 107 -1 N CYS A 103 O MET A 177 SHEET 5 AA3 5 VAL A 196 GLN A 201 -1 O THR A 197 N GLY A 106 SHEET 1 AA4 6 GLU C 46 VAL C 50 0 SHEET 2 AA4 6 LYS C 14 LEU C 19 1 N LEU C 15 O GLU C 46 SHEET 3 AA4 6 LEU C 69 TYR C 71 1 O TYR C 71 N ALA C 18 SHEET 4 AA4 6 TRP C 210 ARG C 213 -1 O THR C 211 N ALA C 70 SHEET 5 AA4 6 ILE C 86 ILE C 93 -1 N ALA C 90 O TRP C 210 SHEET 6 AA4 6 GLY C 244 SER C 247 -1 O ALA C 246 N ALA C 91 SHEET 1 AA5 2 THR C 99 TYR C 100 0 SHEET 2 AA5 2 ILE C 205 PRO C 206 -1 O ILE C 205 N TYR C 100 SHEET 1 AA6 5 GLN C 153 PHE C 156 0 SHEET 2 AA6 5 THR C 122 LEU C 125 1 N LEU C 125 O VAL C 155 SHEET 3 AA6 5 ALA C 174 ALA C 178 1 O ALA C 174 N ALA C 124 SHEET 4 AA6 5 SER C 102 ASN C 107 -1 N CYS C 103 O MET C 177 SHEET 5 AA6 5 VAL C 196 GLN C 201 -1 O ILE C 199 N ILE C 104 SHEET 1 AA7 6 GLU B 46 VAL B 50 0 SHEET 2 AA7 6 LYS B 14 LEU B 19 1 N LEU B 15 O GLU B 46 SHEET 3 AA7 6 LEU B 69 TYR B 71 1 O LEU B 69 N ILE B 16 SHEET 4 AA7 6 TRP B 210 ARG B 213 -1 O THR B 211 N ALA B 70 SHEET 5 AA7 6 ILE B 86 ILE B 93 -1 N ALA B 90 O TRP B 210 SHEET 6 AA7 6 GLY B 244 SER B 247 -1 O ALA B 246 N ALA B 91 SHEET 1 AA8 2 THR B 99 TYR B 100 0 SHEET 2 AA8 2 ILE B 205 PRO B 206 -1 O ILE B 205 N TYR B 100 SHEET 1 AA9 5 GLN B 153 PHE B 156 0 SHEET 2 AA9 5 THR B 122 LEU B 125 1 N LEU B 125 O VAL B 155 SHEET 3 AA9 5 ALA B 174 ALA B 178 1 O ALA B 174 N ALA B 124 SHEET 4 AA9 5 SER B 102 ASN B 107 -1 N CYS B 103 O MET B 177 SHEET 5 AA9 5 VAL B 196 GLN B 201 -1 O ALA B 200 N ILE B 104 SSBOND 1 CYS A 103 CYS A 179 1555 1555 2.07 SSBOND 2 CYS C 103 CYS C 179 1555 1555 2.08 SSBOND 3 CYS B 103 CYS B 179 1555 1555 2.08 SITE 1 AC1 8 TYR A 55 GLY A 73 TYR A 100 SER A 130 SITE 2 AC1 8 THR A 131 SER A 132 HIS A 160 HOH A 407 SITE 1 AC2 7 TYR C 55 TYR C 100 SER C 130 THR C 131 SITE 2 AC2 7 SER C 132 HIS C 160 HOH C 409 SITE 1 AC3 9 TYR B 55 GLY B 73 PRO B 74 TYR B 100 SITE 2 AC3 9 SER B 130 THR B 131 SER B 132 HIS B 160 SITE 3 AC3 9 HOH B 412 CRYST1 152.175 152.175 67.915 90.00 90.00 120.00 P 31 2 1 18 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 0.006571 0.003794 0.000000 0.00000 SCALE2 0.000000 0.007588 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014724 0.00000