PDB Short entry for 1PZR HEADER TRANSFERASE 14-JUL-03 1PZR TITLE STRUCTURE OF FUSED DOCKING DOMAINS FROM THE ERYTHROMYCIN POLYKETIDE TITLE 2 SYNTHASE (DEBS), A MODEL FOR THE INTERACTION BETWEEN DEBS2 AND DEBS3: TITLE 3 THE B DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ERYTHRONOLIDE SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 61-120; COMPND 5 SYNONYM: ORF 2, 6-DEOXYERYTHRONOLIDE B SYNTHASE II, DEBS 2/ORF 3, 6- COMPND 6 DEOXYERYTHRONOLIDE B SYNTHASE III, DEBS 3; COMPND 7 EC: 2.3.1.94; COMPND 8 ENGINEERED: YES; COMPND 9 OTHER_DETAILS: C-TERMINAL FRAGMENT OF DEBS2 FUSED TO N-TERMINAL COMPND 10 FRAGMENT OF DEBS3 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROPOLYSPORA ERYTHRAEA; SOURCE 3 ORGANISM_TAXID: 1836; SOURCE 4 GENE: ERYA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21-CODONPLUS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX4T-3 KEYWDS FOUR HELIX BUNDLE, HOMODIMER, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 7 AUTHOR R.W.BROADHURST,D.NIETLISPACH,M.P.WHEATCROFT,P.F.LEADLAY,K.J.WEISSMAN REVDAT 3 02-MAR-22 1PZR 1 REMARK REVDAT 2 24-FEB-09 1PZR 1 VERSN REVDAT 1 24-FEB-04 1PZR 0 JRNL AUTH R.W.BROADHURST,D.NIETLISPACH,M.P.WHEATCROFT,P.F.LEADLAY, JRNL AUTH 2 K.J.WEISSMAN JRNL TITL THE STRUCTURE OF DOCKING DOMAINS IN MODULAR POLYKETIDE JRNL TITL 2 SYNTHASES. JRNL REF CHEM.BIOL. V. 10 723 2003 JRNL REFN ISSN 1074-5521 JRNL PMID 12954331 JRNL DOI 10.1016/S1074-5521(03)00156-X REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AZARA 1.0, CNS 1.0 REMARK 3 AUTHORS : BOUCHER (AZARA), BRUNGER (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 1754 RESTRAINTS: 1618 NOE-DERIVED DISTANCE RESTRAINTS, 78 REMARK 3 DIHEDRAL ANGLE RESTRAINTS, 58 DISTANCE RESTRAINTS FROM HYDROGEN REMARK 3 BONDS. REMARK 4 REMARK 4 1PZR COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JUL-03. REMARK 100 THE DEPOSITION ID IS D_1000019735. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 100MM PHOSPHATE BUFFER NA REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM DOCK23 U-15N,13C: 100MM REMARK 210 PHOSPHATE BUFFER NA: TRACE REMARK 210 AMOUNTS OF SODIUM AZIDE, AEBSF REMARK 210 PROTEASE INHIBITOR COCKTAIL AND REMARK 210 TSP 1H SHIFT REFERENCE: 90% H2O, REMARK 210 10% D2O; 1MM DOCK23 (50% U-15N, REMARK 210 13C: 50% UNLABELED): 100MM REMARK 210 PHOSPHATE BUFFER NA: TRACE REMARK 210 AMOUNTS OF SODIUM AZIDE, AEBSF REMARK 210 PROTEASE INHIBITOR COCKTAIL AND REMARK 210 TSP 1H SHIFT REFERENCE: 90% H2O, REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; 3D_13C_15N_X-FILTERED_13C-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ANSIG 3.3, CNS 1.0 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 7 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY. INTERMOLECULAR CONTACTS WERE OBTAINED FROM AN X- REMARK 210 FILTERED NOESY EXPERIMENT ON A MIXED-LABELED SAMPLE. 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 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 GLU A 78 -151.80 -170.62 REMARK 500 1 ASP A 79 -49.77 -152.11 REMARK 500 1 SER A 83 -153.13 56.84 REMARK 500 1 ASP A 85 49.66 -169.99 REMARK 500 1 MET A 88 -152.98 -153.69 REMARK 500 1 HIS A 116 -77.15 -67.85 REMARK 500 1 ALA A 118 -139.07 60.51 REMARK 500 1 GLU B 78 -151.99 -169.38 REMARK 500 1 ASP B 79 -47.42 -149.41 REMARK 500 1 SER B 83 -147.92 58.06 REMARK 500 1 ASP B 85 42.98 -171.11 REMARK 500 1 MET B 88 -149.51 -153.06 REMARK 500 1 ALA B 118 -142.22 62.56 REMARK 500 2 GLU A 78 -72.31 66.70 REMARK 500 2 LEU A 81 -139.15 -70.80 REMARK 500 2 MET A 82 -41.25 -175.49 REMARK 500 2 ASP A 85 53.10 -168.70 REMARK 500 2 GLU A 115 -113.36 -71.15 REMARK 500 2 HIS A 116 93.32 52.54 REMARK 500 2 GLU B 78 -60.35 70.67 REMARK 500 2 LEU B 81 -139.88 -69.89 REMARK 500 2 MET B 82 -42.22 -173.75 REMARK 500 2 ASP B 85 49.84 -170.52 REMARK 500 2 GLU B 115 -120.57 -74.19 REMARK 500 2 HIS B 116 103.64 59.63 REMARK 500 3 GLU A 78 158.12 56.48 REMARK 500 3 ASP A 79 -65.78 175.20 REMARK 500 3 MET A 82 -50.65 -164.46 REMARK 500 3 SER A 83 142.69 65.82 REMARK 500 3 ASP A 85 53.36 -150.20 REMARK 500 3 SER A 106 -60.68 -90.33 REMARK 500 3 GLU A 115 -107.31 -67.55 REMARK 500 3 ARG A 117 -27.17 177.20 REMARK 500 3 ALA A 118 -135.61 59.67 REMARK 500 3 GLU B 78 140.86 62.77 REMARK 500 3 ASP B 79 -52.95 -171.58 REMARK 500 3 MET B 82 -47.31 -170.13 REMARK 500 3 SER B 83 143.93 62.62 REMARK 500 3 GLU B 115 -118.90 -75.18 REMARK 500 3 ARG B 117 -32.79 177.14 REMARK 500 3 ALA B 118 -139.45 61.40 REMARK 500 4 ASP A 79 -68.19 174.08 REMARK 500 4 LEU A 80 140.93 64.83 REMARK 500 4 MET A 82 -45.01 75.38 REMARK 500 4 ASP A 85 46.12 -172.90 REMARK 500 4 ASN A 86 -153.44 -149.18 REMARK 500 4 MET A 88 -150.70 -152.66 REMARK 500 4 HIS A 116 -86.34 -59.43 REMARK 500 4 ASP B 79 -57.05 -172.31 REMARK 500 4 LEU B 80 136.25 60.53 REMARK 500 REMARK 500 THIS ENTRY HAS 100 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PZQ RELATED DB: PDB REMARK 900 STRUCTURE OF FUSED DOCKING DOMAINS FROM THE ERYTHROMYCIN POLYKETIDE REMARK 900 SYNTHASE (DEBS), A MODEL FOR THE INTERACTION BETWEEN DEBS 2 AND REMARK 900 DEBS 3: THE A DOMAIN REMARK 999 REMARK 999 SEQUENCE LEU 81 AND MET 82 FORM A LINKER BETWEEN THE C-TERMINAL REMARK 999 FRAGMENT OF DEBS2 AND THE N-TERMINAL FRAGMENT OF DEBS3 DBREF 1PZR A 61 80 UNP Q03132 ERY2_SACER 3548 3567 DBREF 1PZR A 83 120 UNP Q03133 ERY3_SACER 2 39 DBREF 1PZR B 61 80 UNP Q03132 ERY2_SACER 3548 3567 DBREF 1PZR B 83 120 UNP Q03133 ERY3_SACER 2 39 SEQADV 1PZR LEU A 81 Q03132 SEE REMARK 999 SEQADV 1PZR MET A 82 Q03132 SEE REMARK 999 SEQADV 1PZR LEU B 81 Q03132 SEE REMARK 999 SEQADV 1PZR MET B 82 Q03132 SEE REMARK 999 SEQRES 1 A 60 ALA SER ASP ASP GLU LEU PHE SER MET LEU ASP GLN ARG SEQRES 2 A 60 PHE GLY GLY GLY GLU ASP LEU LEU MET SER GLY ASP ASN SEQRES 3 A 60 GLY MET THR GLU GLU LYS LEU ARG ARG TYR LEU LYS ARG SEQRES 4 A 60 THR VAL THR GLU LEU ASP SER VAL THR ALA ARG LEU ARG SEQRES 5 A 60 GLU VAL GLU HIS ARG ALA GLY GLU SEQRES 1 B 60 ALA SER ASP ASP GLU LEU PHE SER MET LEU ASP GLN ARG SEQRES 2 B 60 PHE GLY GLY GLY GLU ASP LEU LEU MET SER GLY ASP ASN SEQRES 3 B 60 GLY MET THR GLU GLU LYS LEU ARG ARG TYR LEU LYS ARG SEQRES 4 B 60 THR VAL THR GLU LEU ASP SER VAL THR ALA ARG LEU ARG SEQRES 5 B 60 GLU VAL GLU HIS ARG ALA GLY GLU HELIX 1 1 SER A 62 GLY A 76 1 15 HELIX 2 2 MET A 88 ALA A 118 1 31 HELIX 3 3 SER B 62 GLY B 76 1 15 HELIX 4 4 MET B 88 ALA B 118 1 31 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