HEADER OXIDOREDUCTASE 21-FEB-07 2JO6 TITLE NMR STRUCTURE OF THE E.COLI PROTEIN NIRD, NORTHEAST STRUCTURAL TITLE 2 GENOMICS TARGET ET100 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NITRITE REDUCTASE [NAD(P)H] SMALL SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 EC: 1.7.1.4; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: NIRD; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET KEYWDS ALL BETA, ISP DOMAIN, RIESKE IRON-SULFUR PROTEIN, 3-LAYER SANDWICH, KEYWDS 2 STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, NORTHEAST KEYWDS 3 STRUCTURAL GENOMICS CONSORTIUM, NESG, OXIDOREDUCTASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.A.RAMELOT,J.R.CORT,A.A.YEE,V.GUIDO,J.A.LUKIN,C.H.ARROWSMITH, AUTHOR 2 M.A.KENNEDY,NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) REVDAT 5 08-MAY-24 2JO6 1 REMARK REVDAT 4 20-DEC-23 2JO6 1 REMARK REVDAT 3 05-FEB-20 2JO6 1 REMARK SEQADV REVDAT 2 24-FEB-09 2JO6 1 VERSN REVDAT 1 27-MAR-07 2JO6 0 JRNL AUTH T.A.RAMELOT,J.R.CORT,A.A.YEE,C.H.ARROWSMITH,M.A.KENNEDY JRNL TITL NMR STRUCTURE OF E.COLI NIRD. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AUTOSTRUCTURE 2.1.1, CNS 1.1 REMARK 3 AUTHORS : HUANG, SWAPANA, RAJAN, KE, XIA, SHUKLA, INOUYE AND REMARK 3 MONTELIONE (AUTOSTRUCTURE), BRUNGER, ADAMS, CLORE, REMARK 3 GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: SIMULATED ANNEALING USING NIH XPLOR, REMARK 3 FOLLOWED BY CNS WATER REFINEMENT. REMARK 4 REMARK 4 2JO6 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-MAR-07. REMARK 100 THE DEPOSITION ID IS D_1000100078. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 300 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-100% 13C] PROTEIN, 10 MM REMARK 210 TRIS, 300 MM SODIUM CHLORIDE, 10 REMARK 210 UM ZINC ION, 10 MM DTT, 0.01 % REMARK 210 SODIUM AZIDE, 95% H2O/5% D2O; 1 REMARK 210 MM [U-100% 13C] PROTEIN, 10 MM REMARK 210 TRIS, 300 MM SODIUM CHLORIDE, 10 REMARK 210 UM ZINC ION, 10 MM DTT, 0.01 % REMARK 210 SODIUM AZIDE, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 2D 1H-15N HSQC; REMARK 210 2D 1H-13C HSQC; 3D HNCACB; 3D 1H- REMARK 210 13C NOESY; 4D CC NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 750 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR NIH 2.15.0, SPARKY 3.1, REMARK 210 NMRPIPE LINUX9 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 25 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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: NULL 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLN A -2 REMARK 465 GLY A -1 REMARK 465 HIS A 0 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 ILE A 7 -67.34 -99.87 REMARK 500 1 GLU A 16 68.99 36.99 REMARK 500 1 GLU A 50 81.94 70.89 REMARK 500 1 ARG A 56 40.56 -103.97 REMARK 500 1 LYS A 73 -113.28 -144.96 REMARK 500 1 LYS A 74 25.14 -140.71 REMARK 500 1 ASP A 81 -57.88 -144.15 REMARK 500 1 GLU A 88 -15.23 -49.97 REMARK 500 1 SER A 91 144.36 76.83 REMARK 500 2 SER A 2 -65.52 -120.11 REMARK 500 2 ILE A 7 -73.97 -102.16 REMARK 500 2 SER A 36 -158.12 -91.30 REMARK 500 2 SER A 52 -107.72 -76.44 REMARK 500 2 ARG A 56 40.66 -88.18 REMARK 500 2 HIS A 62 -70.05 -90.39 REMARK 500 2 GLN A 63 83.45 -150.56 REMARK 500 2 PRO A 71 0.01 -67.86 REMARK 500 2 LYS A 73 -103.31 -151.41 REMARK 500 2 LYS A 74 27.73 -145.16 REMARK 500 2 ASP A 81 -62.65 -149.94 REMARK 500 2 GLU A 88 -32.36 -37.74 REMARK 500 2 PHE A 90 -65.41 -105.71 REMARK 500 2 SER A 91 149.47 69.47 REMARK 500 3 ILE A 7 -69.36 -93.01 REMARK 500 3 ASP A 37 30.29 -92.24 REMARK 500 3 GLU A 50 73.25 61.37 REMARK 500 3 ARG A 56 39.37 -91.61 REMARK 500 3 LYS A 73 -75.52 -150.81 REMARK 500 3 LYS A 74 71.72 169.98 REMARK 500 3 PHE A 90 -56.26 -124.35 REMARK 500 3 SER A 91 -173.35 68.24 REMARK 500 4 TRP A 4 109.03 -52.29 REMARK 500 4 ILE A 7 -76.02 -88.75 REMARK 500 4 GLU A 50 73.73 68.11 REMARK 500 4 ARG A 56 40.90 -90.03 REMARK 500 4 HIS A 62 -56.56 -139.71 REMARK 500 4 GLN A 63 31.78 -168.18 REMARK 500 4 LYS A 73 -92.33 -138.07 REMARK 500 4 LYS A 74 22.24 -176.11 REMARK 500 4 PHE A 90 42.09 -107.30 REMARK 500 5 SER A 36 -150.85 -97.72 REMARK 500 5 GLU A 50 80.24 48.87 REMARK 500 5 ARG A 56 40.73 -92.14 REMARK 500 5 GLN A 63 85.13 -168.75 REMARK 500 5 LEU A 72 -70.78 -52.53 REMARK 500 5 ASP A 81 20.35 -144.29 REMARK 500 5 GLU A 88 -35.16 -36.18 REMARK 500 5 SER A 91 -168.70 67.82 REMARK 500 5 VAL A 92 -168.87 -114.57 REMARK 500 5 ASP A 101 16.74 58.29 REMARK 500 REMARK 500 THIS ENTRY HAS 211 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: ET100 RELATED DB: TARGETDB REMARK 900 RELATED ID: 15139 RELATED DB: BMRB DBREF 2JO6 A 1 108 UNP P0A9I8 NIRD_ECOLI 1 108 SEQADV 2JO6 GLN A -2 UNP P0A9I8 CLONING ARTIFACT SEQADV 2JO6 GLY A -1 UNP P0A9I8 CLONING ARTIFACT SEQADV 2JO6 HIS A 0 UNP P0A9I8 CLONING ARTIFACT SEQADV 2JO6 GLY A 109 UNP P0A9I8 CLONING ARTIFACT SEQADV 2JO6 SER A 110 UNP P0A9I8 CLONING ARTIFACT SEQRES 1 A 113 GLN GLY HIS MET SER GLN TRP LYS ASP ILE CYS LYS ILE SEQRES 2 A 113 ASP ASP ILE LEU PRO GLU THR GLY VAL CYS ALA LEU LEU SEQRES 3 A 113 GLY ASP GLU GLN VAL ALA ILE PHE ARG PRO TYR HIS SER SEQRES 4 A 113 ASP GLN VAL PHE ALA ILE SER ASN ILE ASP PRO PHE PHE SEQRES 5 A 113 GLU SER SER VAL LEU SER ARG GLY LEU ILE ALA GLU HIS SEQRES 6 A 113 GLN GLY GLU LEU TRP VAL ALA SER PRO LEU LYS LYS GLN SEQRES 7 A 113 ARG PHE ARG LEU SER ASP GLY LEU CYS MET GLU ASP GLU SEQRES 8 A 113 GLN PHE SER VAL LYS HIS TYR GLU ALA ARG VAL LYS ASP SEQRES 9 A 113 GLY VAL VAL GLN LEU ARG GLY GLY SER SHEET 1 A 6 LYS A 5 LYS A 9 0 SHEET 2 A 6 VAL A 103 ARG A 107 -1 O VAL A 104 N CYS A 8 SHEET 3 A 6 HIS A 94 LYS A 100 -1 N LYS A 100 O VAL A 103 SHEET 4 A 6 PHE A 40 SER A 43 -1 N ALA A 41 O TYR A 95 SHEET 5 A 6 GLU A 26 ARG A 32 -1 N ALA A 29 O ILE A 42 SHEET 6 A 6 THR A 17 LEU A 23 -1 N ALA A 21 O VAL A 28 SHEET 1 B 4 LEU A 58 HIS A 62 0 SHEET 2 B 4 GLU A 65 SER A 70 -1 O TRP A 67 N ALA A 60 SHEET 3 B 4 GLN A 75 ARG A 78 -1 O GLN A 75 N SER A 70 SHEET 4 B 4 LEU A 83 CYS A 84 -1 O LEU A 83 N ARG A 78 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