10 20 30 40 50 60 70 80 2HNB - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER ELECTRON TRANSPORT 12-JUL-06 2HNB
TITLE SOLUTION STRUCTURE OF A BACTERIAL HOLO-FLAVODOXIN
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN MIOC; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FLAVODOXIN; COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET21A(+)
KEYWDS ALPHA-BETA SANDWICH, FLAVODOXIN FOLD, ELECTRON TRANSPORT
EXPDTA SOLUTION NMR
NUMMDL 21
MDLTYP MINIMIZED AVERAGE
AUTHOR Y.HU,C.JIN
REVDAT 4 24-FEB-09 2HNB 1 VERSN REVDAT 3 15-MAY-07 2HNB 3 ATOM REVDAT 2 15-MAY-07 2HNB 1 JRNL REVDAT 1 19-SEP-06 2HNB 0
JRNL AUTH Y.HU,Y.LI,X.ZHANG,X.GUO,B.XIA,C.JIN JRNL TITL SOLUTION STRUCTURES AND BACKBONE DYNAMICS OF A JRNL TITL 2 FLAVODOXIN MIOC FROM ESCHERICHIA COLI IN BOTH APO- JRNL TITL 3 AND HOLO-FORMS: IMPLICATIONS FOR COFACTOR BINDING JRNL TITL 4 AND ELECTRON TRANSFER JRNL REF J.BIOL.CHEM. V. 281 35454 2006 JRNL REFN ISSN 0021-9258 JRNL PMID 16963438 JRNL DOI 10.1074/JBC.M607336200
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER 7.0 REMARK 3 AUTHORS : CASE, D. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2HNB COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-JUL-06. REMARK 100 THE RCSB ID CODE IS RCSB038540.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 30MM NACL, 30MM SODIUM REMARK 210 PHOSPHATE REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM HOLO-FLAVODOXIN U-15N; REMARK 210 30MM PHOSPHATE BUFFER NA; 30MM REMARK 210 NACL; 50MM FMN; 90% H2O, 10% REMARK 210 D2O; 1MM HOLO-FLAVODOXIN U- REMARK 210 15N,13C; 30MM PHOSPHATE BUFFER REMARK 210 NA; 30MM NACL; 50MM FMN; 90% REMARK 210 H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY, 3D_ REMARK 210 13C-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ, 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 3.5, NMRPIPE 2.1, REMARK 210 NMRVIEW 5, CYANA 2.0 REMARK 210 METHOD USED : MOLECULAR DYNAMICS, SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 21 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 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 1 GLU A 20 OE1 - CD - OE2 ANGL. DEV. = -45.3 DEGREES REMARK 500 1 GLU A 20 CG - CD - OE1 ANGL. DEV. = 43.4 DEGREES REMARK 500 1 GLU A 20 CG - CD - OE2 ANGL. DEV. = -34.5 DEGREES REMARK 500 1 ASP A 64 OD1 - CG - OD2 ANGL. DEV. = -45.0 DEGREES REMARK 500 1 ASP A 64 CB - CG - OD1 ANGL. DEV. = 43.2 DEGREES REMARK 500 1 ASP A 64 CB - CG - OD2 ANGL. DEV. = -35.1 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 1 GLU A 42 2.10 -66.35 REMARK 500 1 LYS A 77 62.82 26.73 REMARK 500 1 SER A 81 10.80 -63.96 REMARK 500 1 PHE A 98 64.27 -153.04 REMARK 500 1 ILE A 130 129.46 51.72 REMARK 500 1 GLU A 132 -13.57 -148.31 REMARK 500 2 LYS A 77 66.11 37.74 REMARK 500 2 SER A 81 18.62 -61.58 REMARK 500 2 THR A 97 51.15 -119.32 REMARK 500 2 ASP A 133 72.02 -152.87 REMARK 500 3 LYS A 77 64.30 27.31 REMARK 500 3 LEU A 80 34.98 -74.66 REMARK 500 3 SER A 81 23.42 -61.75 REMARK 500 3 PHE A 98 83.36 -67.52 REMARK 500 3 ASP A 127 -130.54 -149.71 REMARK 500 3 GLU A 132 -16.32 -155.51 REMARK 500 4 THR A 35 73.15 -108.81 REMARK 500 4 LYS A 77 57.22 30.53 REMARK 500 4 SER A 81 19.97 -63.31 REMARK 500 4 SER A 92 140.92 115.01 REMARK 500 4 ARG A 93 0.84 -67.81 REMARK 500 4 ASP A 127 -54.14 -144.82 REMARK 500 4 PRO A 131 170.57 -57.55 REMARK 500 5 ASP A 96 -16.31 66.57 REMARK 500 5 THR A 97 171.66 59.78 REMARK 500 5 ILE A 102 -34.10 -141.15 REMARK 500 5 ASP A 127 -42.18 -153.03 REMARK 500 5 ILE A 130 52.83 35.61 REMARK 500 5 ASP A 133 65.50 -152.82 REMARK 500 6 LEU A 12 -30.29 -140.57 REMARK 500 6 HIS A 57 19.61 45.08 REMARK 500 6 ALA A 59 -9.09 -147.82 REMARK 500 6 LYS A 77 60.54 39.71 REMARK 500 6 SER A 81 10.95 -51.57 REMARK 500 6 ASP A 127 -7.39 -142.68 REMARK 500 6 GLU A 132 24.32 -70.95 REMARK 500 7 THR A 11 -41.40 -133.42 REMARK 500 7 SER A 81 20.00 -61.00 REMARK 500 7 ASP A 96 -47.06 -162.87 REMARK 500 7 HIS A 128 34.84 -159.76 REMARK 500 7 ASP A 129 -25.16 67.87 REMARK 500 8 ALA A 46 4.67 -69.71 REMARK 500 8 LYS A 77 57.92 31.00 REMARK 500 8 SER A 81 4.67 -57.87 REMARK 500 8 ASP A 96 -49.02 -171.61 REMARK 500 8 ASP A 129 12.77 -143.17 REMARK 500 8 ILE A 130 56.51 34.91 REMARK 500 8 ASP A 133 57.89 37.94 REMARK 500 9 HIS A 37 99.96 -69.29 REMARK 500 9 LYS A 77 59.06 36.55 REMARK 500 9 SER A 81 16.05 -57.46 REMARK 500 9 CYS A 99 106.82 -41.38 REMARK 500 9 ASP A 127 35.78 -149.13 REMARK 500 9 ASP A 129 42.19 -154.50 REMARK 500 9 ILE A 130 49.88 39.25 REMARK 500 9 GLU A 132 18.82 59.40 REMARK 500 9 ASP A 133 67.60 38.21 REMARK 500 10 THR A 35 71.55 -119.55 REMARK 500 10 HIS A 57 44.23 -79.12 REMARK 500 10 LYS A 77 61.43 38.45 REMARK 500 10 SER A 81 15.62 -60.10 REMARK 500 10 THR A 97 38.07 -74.06 REMARK 500 10 ASP A 127 -52.71 -165.70 REMARK 500 10 ILE A 130 74.12 24.11 REMARK 500 11 THR A 11 -31.06 -139.06 REMARK 500 11 LYS A 77 64.72 28.05 REMARK 500 11 SER A 81 10.31 -45.76 REMARK 500 11 HIS A 128 -36.89 64.78 REMARK 500 11 ASP A 129 -44.08 64.98 REMARK 500 11 ILE A 130 64.46 25.13 REMARK 500 11 GLU A 132 -58.36 -136.49 REMARK 500 12 ASP A 3 -25.17 -140.98 REMARK 500 12 LYS A 77 57.28 30.04 REMARK 500 12 SER A 81 12.20 -53.18 REMARK 500 12 PHE A 98 -83.29 22.44 REMARK 500 12 CYS A 99 38.06 -140.37 REMARK 500 12 ASP A 127 -54.75 -147.13 REMARK 500 12 GLU A 132 11.98 -67.85 REMARK 500 13 LEU A 12 -27.60 -144.25 REMARK 500 13 LYS A 77 57.98 31.80 REMARK 500 13 SER A 81 19.82 -62.63 REMARK 500 13 CYS A 99 -37.26 -159.80 REMARK 500 13 ASP A 127 -45.83 -151.91 REMARK 500 13 HIS A 128 -56.42 -160.28 REMARK 500 13 ASP A 129 -141.54 -163.97 REMARK 500 14 THR A 11 -42.44 -139.85 REMARK 500 14 THR A 56 99.71 -54.13 REMARK 500 14 LYS A 77 57.82 32.27 REMARK 500 14 SER A 81 11.21 -58.74 REMARK 500 14 TYR A 95 179.93 52.70 REMARK 500 14 ASP A 96 -41.47 -156.33 REMARK 500 14 ASP A 127 -42.34 -158.03 REMARK 500 14 ASP A 129 -19.02 65.97 REMARK 500 14 PRO A 131 179.68 -59.33 REMARK 500 15 LEU A 12 -31.89 -132.50 REMARK 500 15 THR A 35 69.64 -110.96 REMARK 500 15 SER A 55 79.32 -109.33 REMARK 500 15 LYS A 77 60.67 30.59 REMARK 500 15 SER A 81 20.89 -63.37 REMARK 500 15 ASP A 96 -49.41 -164.78 REMARK 500 15 ASP A 129 -50.98 -161.76 REMARK 500 16 LYS A 77 57.73 29.97 REMARK 500 16 SER A 81 19.90 -63.70 REMARK 500 16 ASP A 127 -48.81 -164.63 REMARK 500 16 ASP A 129 73.74 -66.57 REMARK 500 16 ILE A 130 56.00 36.91 REMARK 500 17 ALA A 2 -161.03 48.59 REMARK 500 17 ASP A 3 -27.27 -140.97 REMARK 500 17 ILE A 7 78.05 -113.39 REMARK 500 17 THR A 11 -30.59 -146.90 REMARK 500 17 SER A 81 19.97 50.55 REMARK 500 17 ALA A 82 -0.63 -157.38 REMARK 500 17 ASP A 96 -43.07 -162.76 REMARK 500 17 CYS A 99 -25.65 -155.17 REMARK 500 17 ILE A 130 62.06 39.27 REMARK 500 18 SER A 10 58.57 -105.23 REMARK 500 18 HIS A 57 42.28 -78.63 REMARK 500 18 LYS A 77 64.67 39.31 REMARK 500 18 SER A 81 15.44 54.86 REMARK 500 18 ALA A 82 2.03 -153.92 REMARK 500 18 SER A 92 47.45 -76.33 REMARK 500 18 ASP A 96 -66.33 -169.01 REMARK 500 18 THR A 97 -177.99 49.21 REMARK 500 18 PHE A 98 5.45 -151.82 REMARK 500 18 CYS A 99 -11.51 56.55 REMARK 500 18 ASP A 129 49.82 -80.36 REMARK 500 19 HIS A 57 22.90 41.53 REMARK 500 19 ALA A 59 -13.32 -154.35 REMARK 500 19 LYS A 77 60.86 29.27 REMARK 500 19 SER A 81 19.35 -62.15 REMARK 500 19 HIS A 128 -52.07 -168.82 REMARK 500 19 ASP A 129 -34.72 -160.61 REMARK 500 20 THR A 11 -43.70 -135.92 REMARK 500 20 SER A 55 47.97 -106.98 REMARK 500 20 THR A 56 105.83 -33.02 REMARK 500 20 SER A 81 17.10 -60.76 REMARK 500 20 ALA A 114 -178.21 -65.35 REMARK 500 20 ASP A 127 -30.92 68.01 REMARK 500 20 ASP A 129 -140.51 -129.45 REMARK 500 20 ASP A 133 63.75 -153.23 REMARK 500 21 LYS A 77 59.27 32.73 REMARK 500 21 LEU A 80 38.36 -140.54 REMARK 500 21 SER A 81 24.41 -59.43 REMARK 500 21 GLU A 132 -166.21 58.36 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 THR A 97 PHE A 98 1 -129.44 REMARK 500 ASP A 129 ILE A 130 1 -140.88 REMARK 500 PRO A 131 GLU A 132 1 -141.29 REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2HNA RELATED DB: PDB REMARK 900 APO-FORM OF THE SAME PROTEIN
DBREF 2HNB A 1 147 UNP P03817 MIOC_ECOLI 1 147
SEQRES 1 A 147 MET ALA ASP ILE THR LEU ILE SER GLY SER THR LEU GLY SEQRES 2 A 147 GLY ALA GLU TYR VAL ALA GLU HIS LEU ALA GLU LYS LEU SEQRES 3 A 147 GLU GLU ALA GLY PHE THR THR GLU THR LEU HIS GLY PRO SEQRES 4 A 147 LEU LEU GLU ASP LEU PRO ALA SER GLY ILE TRP LEU VAL SEQRES 5 A 147 ILE SER SER THR HIS GLY ALA GLY ASP ILE PRO ASP ASN SEQRES 6 A 147 LEU SER PRO PHE TYR GLU ALA LEU GLN GLU GLN LYS PRO SEQRES 7 A 147 ASP LEU SER ALA VAL ARG PHE GLY ALA ILE GLY ILE GLY SEQRES 8 A 147 SER ARG GLU TYR ASP THR PHE CYS GLY ALA ILE ASP LYS SEQRES 9 A 147 LEU GLU ALA GLU LEU LYS ASN SER GLY ALA LYS GLN THR SEQRES 10 A 147 GLY GLU THR LEU LYS ILE ASN ILE LEU ASP HIS ASP ILE SEQRES 11 A 147 PRO GLU ASP PRO ALA GLU GLU TRP LEU GLY SER TRP VAL SEQRES 12 A 147 ASN LEU LEU LYS
HELIX 1 1 GLY A 13 GLY A 30 1 18 HELIX 2 2 LEU A 40 LEU A 44 5 5 HELIX 3 3 SER A 67 LYS A 77 1 11 HELIX 4 4 GLY A 100 GLY A 113 1 14 HELIX 5 5 PRO A 134 LYS A 147 1 14
SHEET 1 A 5 THR A 33 HIS A 37 0 SHEET 2 A 5 ILE A 4 SER A 8 1 N LEU A 6 O GLU A 34 SHEET 3 A 5 SER A 47 SER A 55 1 O LEU A 51 N ILE A 7 SHEET 4 A 5 ALA A 82 GLY A 91 1 O ARG A 84 N GLY A 48 SHEET 5 A 5 LYS A 115 GLN A 116 1 O LYS A 115 N VAL A 83 SHEET 1 B 5 THR A 33 HIS A 37 0 SHEET 2 B 5 ILE A 4 SER A 8 1 N LEU A 6 O GLU A 34 SHEET 3 B 5 SER A 47 SER A 55 1 O LEU A 51 N ILE A 7 SHEET 4 B 5 ALA A 82 GLY A 91 1 O ARG A 84 N GLY A 48 SHEET 5 B 5 LEU A 121 ASN A 124 1 O LEU A 121 N GLY A 89
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