HEADER ELECTRON TRANSPORT 23-DEC-99 1DX8 TITLE RUBREDOXIN FROM GUILLARDIA THETA COMPND MOL_ID: 1; COMPND 2 MOLECULE: RUBREDOXIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GUILLARDIA THETA; SOURCE 3 ORGANISM_TAXID: 55529; SOURCE 4 ATCC: NCBI 55529; SOURCE 5 ORGANELLE: NUCLEOMORPH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A; SOURCE 11 OTHER_DETAILS: THE RBX-GENE IS ENCODED ON THE G.THETA NUCLEOMORPH SOURCE 12 (CHROMOSOME II) KEYWDS ELECTRON TRANSPORT, RUBREDOXIN, GUILLARDIA THETA, ZINC-SUBSTITUTION EXPDTA SOLUTION NMR NUMMDL 21 AUTHOR K.SCHWEIMER,S.HOFFMANN,J.WASTL,U.G.MAIER,P.ROESCH,H.STICHT REVDAT 5 17-JAN-18 1DX8 1 JRNL REVDAT 4 24-FEB-09 1DX8 1 VERSN REVDAT 3 04-APR-05 1DX8 1 ATOM REVDAT 2 12-SEP-00 1DX8 1 JRNL REVDAT 1 04-JAN-00 1DX8 0 JRNL AUTH K.SCHWEIMER,S.HOFFMANN,J.WASTL,U.G.MAIER,P.ROSCH,H.STICHT JRNL TITL SOLUTION STRUCTURE OF A ZINC SUBSTITUTED EUKARYOTIC JRNL TITL 2 RUBREDOXIN FROM THE CRYPTOMONAD ALGA GUILLARDIA THETA. JRNL REF PROTEIN SCI. V. 9 1474 2000 JRNL REFN ISSN 0961-8368 JRNL PMID 10975569 JRNL DOI 10.1110/PS.9.8.1474 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN THE REMARK 3 JRNL CITATION ABOVE. REMARK 4 REMARK 4 1DX8 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-DEC-99. REMARK 100 THE DEPOSITION ID IS D_1290004397. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.4 REMARK 210 IONIC STRENGTH : 10 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 10% WATER/90% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 1H-1H NOESY; 1H-1H TOCSY 1H-15N REMARK 210 HSQC; 1H-13C CT-HSQC 15N-EDITED REMARK 210 NOESY(3D); 13C-EDITED NOESY(3D) REMARK 210 HNCO; HNCA; HNCACB; CBCA(CO)NH REMARK 210 HBHA(CO)NH; HNHA; HCCH-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRVIEW, NDEE REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 60 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 21 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST RESTRAINT VIOLATION, REMARK 210 LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY ON 13C, 15N-LABELED, ZINC-SUBSTITUTED RUBREDOXIN 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 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 THE IRON-ATOM PRESENT IN THE NATIVE RUBREDOXIN WAS REPLACED REMARK 400 BY ZINC IN ORDER TO AVOID PARAMAGNETIC EFFECTS. 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 ASP A 4 -24.88 174.02 REMARK 500 1 GLU A 5 61.44 -69.68 REMARK 500 1 PRO A 19 -70.04 -68.77 REMARK 500 1 PRO A 30 -163.38 -70.90 REMARK 500 1 LEU A 37 178.97 -56.61 REMARK 500 1 ARG A 47 18.17 57.65 REMARK 500 1 ILE A 56 77.63 -159.99 REMARK 500 1 LYS A 57 65.76 -100.71 REMARK 500 1 ALA A 61 127.16 -176.20 REMARK 500 1 GLU A 65 79.01 -154.36 REMARK 500 1 ASN A 66 53.16 -90.74 REMARK 500 2 GLU A 2 96.38 -61.88 REMARK 500 2 GLU A 5 -148.47 -90.57 REMARK 500 2 PRO A 19 -76.66 -68.58 REMARK 500 2 PRO A 30 -164.87 -72.19 REMARK 500 2 SER A 55 -178.44 -68.15 REMARK 500 2 ILE A 56 88.12 -160.00 REMARK 500 2 LYS A 57 64.55 -101.66 REMARK 500 2 GLN A 67 62.89 -103.54 REMARK 500 3 GLU A 5 -146.95 -91.38 REMARK 500 3 PRO A 19 -72.24 -68.99 REMARK 500 3 PRO A 30 -163.59 -73.01 REMARK 500 3 LEU A 37 -179.25 -53.19 REMARK 500 3 ILE A 56 69.93 -157.60 REMARK 500 3 LYS A 58 148.59 -170.47 REMARK 500 3 ALA A 61 23.23 -153.36 REMARK 500 3 GLU A 65 79.38 53.46 REMARK 500 3 ASN A 66 46.38 -146.92 REMARK 500 4 ASP A 4 -32.02 178.06 REMARK 500 4 GLU A 5 78.03 -66.66 REMARK 500 4 PRO A 30 -164.14 -69.54 REMARK 500 4 SER A 38 164.86 -49.57 REMARK 500 4 ARG A 47 17.73 52.95 REMARK 500 4 LYS A 57 66.46 -108.69 REMARK 500 4 ALA A 64 127.70 -174.19 REMARK 500 4 GLN A 67 -167.31 -116.68 REMARK 500 5 GLU A 2 71.46 53.68 REMARK 500 5 ASP A 4 10.53 -146.70 REMARK 500 5 PRO A 19 -74.04 -68.81 REMARK 500 5 PRO A 30 -163.54 -70.84 REMARK 500 5 ARG A 47 16.32 57.30 REMARK 500 5 ILE A 56 81.51 -160.03 REMARK 500 5 ALA A 61 -56.74 -176.80 REMARK 500 5 LYS A 68 173.75 55.32 REMARK 500 5 TYR A 69 -72.90 -147.09 REMARK 500 6 ASP A 4 -30.70 -176.35 REMARK 500 6 GLU A 5 -142.04 -78.59 REMARK 500 6 PRO A 30 -163.83 -71.42 REMARK 500 6 ARG A 47 17.60 57.66 REMARK 500 6 ILE A 56 89.19 -158.78 REMARK 500 REMARK 500 THIS ENTRY HAS 197 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 47 0.23 SIDE CHAIN REMARK 500 2 ARG A 47 0.29 SIDE CHAIN REMARK 500 3 ARG A 47 0.32 SIDE CHAIN REMARK 500 4 ARG A 47 0.21 SIDE CHAIN REMARK 500 5 ARG A 47 0.20 SIDE CHAIN REMARK 500 6 ARG A 47 0.32 SIDE CHAIN REMARK 500 7 ARG A 47 0.17 SIDE CHAIN REMARK 500 8 ARG A 47 0.29 SIDE CHAIN REMARK 500 9 ARG A 47 0.30 SIDE CHAIN REMARK 500 10 ARG A 47 0.28 SIDE CHAIN REMARK 500 11 ARG A 47 0.16 SIDE CHAIN REMARK 500 12 ARG A 47 0.21 SIDE CHAIN REMARK 500 13 ARG A 47 0.22 SIDE CHAIN REMARK 500 14 ARG A 47 0.31 SIDE CHAIN REMARK 500 15 ARG A 47 0.26 SIDE CHAIN REMARK 500 16 ARG A 47 0.26 SIDE CHAIN REMARK 500 17 ARG A 47 0.25 SIDE CHAIN REMARK 500 18 ARG A 47 0.15 SIDE CHAIN REMARK 500 19 ARG A 47 0.21 SIDE CHAIN REMARK 500 20 ARG A 47 0.21 SIDE CHAIN REMARK 500 21 ARG A 47 0.32 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 71 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 43 SG REMARK 620 2 CYS A 13 SG 109.6 REMARK 620 3 CYS A 46 SG 108.9 110.6 REMARK 620 4 CYS A 10 SG 108.7 109.5 109.6 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 71 DBREF 1DX8 A 1 70 UNP Q9XG40 Q9XG40 57 126 SEQRES 1 A 70 MET GLU ILE ASP GLU GLY LYS TYR GLU CYS GLU ALA CYS SEQRES 2 A 70 GLY TYR ILE TYR GLU PRO GLU LYS GLY ASP LYS PHE ALA SEQRES 3 A 70 GLY ILE PRO PRO GLY THR PRO PHE VAL ASP LEU SER ASP SEQRES 4 A 70 SER PHE MET CYS PRO ALA CYS ARG SER PRO LYS ASN GLN SEQRES 5 A 70 PHE LYS SER ILE LYS LYS VAL ILE ALA GLY PHE ALA GLU SEQRES 6 A 70 ASN GLN LYS TYR GLY HET ZN A 71 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ HELIX 1 1 PRO A 33 LEU A 37 5 5 SHEET 1 A 3 TYR A 15 TYR A 17 0 SHEET 2 A 3 TYR A 8 CYS A 10 -1 N CYS A 10 O TYR A 15 SHEET 3 A 3 PHE A 53 SER A 55 -1 N LYS A 54 O GLU A 9 LINK ZN ZN A 71 SG CYS A 43 1555 1555 2.35 LINK ZN ZN A 71 SG CYS A 13 1555 1555 2.35 LINK ZN ZN A 71 SG CYS A 46 1555 1555 2.35 LINK ZN ZN A 71 SG CYS A 10 1555 1555 2.35 SITE 1 AC1 4 CYS A 10 CYS A 13 CYS A 43 CYS A 46 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