10 20 30 40 50 60 70 80 1IB7 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER ELECTRON TRANSPORT 27-MAR-01 1IB7
TITLE SOLUTION STRUCTURE OF F35Y MUTANT OF RAT FERRO CYTOCHROME TITLE 2 B5, A CONFORMATION, ENSEMBLE OF 20 STRUCTURES
COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME B5; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS RATTUS; SOURCE 3 ORGANISM_COMMON: BLACK RAT; SOURCE 4 ORGANISM_TAXID: 10117; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET3C
KEYWDS CYTOCHROME B5, ELECTRON TRANSPORT, SOLUTION STRUCTURES
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR N.SHAHZAD,B.DANGI,J.I.BLANKMAN,R.D.GUILES
REVDAT 2 24-FEB-09 1IB7 1 VERSN REVDAT 1 04-APR-01 1IB7 0
JRNL AUTH N.SHAHZAD,B.DANGI,J.I.BLANKMAN,R.D.GUILES JRNL TITL MUTAGENIC MODULATION OF THE ENTROPY CHANGE ON JRNL TITL 2 OXIDATION OF CYTOCHROME B5: AN ANALYSIS OF THE JRNL TITL 3 CONTRIBUTION OF CONFORMATIONAL ENTROPY JRNL REF TO BE PUBLISHED JRNL REFN
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DYANA 1.5 REMARK 3 AUTHORS : GUENTERT, P. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE WAS CALCULATED USING REMARK 3 1167 NOE RESTRAINTS AND 69 DIHEDRAL ANGLE RESTRAINTS; RESIDUES REMARK 3 1-3 AND 89-94 WERE NOT INCLUDED IN THE REFINED MODEL BECAUSE REMARK 3 OF A LACK OF RESTRAINTS IN THESE PRESUMABLY UNSTRUCTURED REMARK 3 REGIONS OF THE PROTEIN.
REMARK 4 REMARK 4 1IB7 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-MAR-01. REMARK 100 THE RCSB ID CODE IS RCSB013120.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 313; 313; 313 REMARK 210 PH : 7.0; 7.0; 7.0 REMARK 210 IONIC STRENGTH : 1MM; 1MM; 1MM REMARK 210 PRESSURE : NULL; NULL; NULL REMARK 210 SAMPLE CONTENTS : 2MM F35Y CYTOCHROME B5; 1MM REMARK 210 PHOSPHATE BUFFER; PURGED WITH REMARK 210 NITROGEN GAS AND REDUCED BY REMARK 210 ADDING FEW GRAINS OF SODIUM REMARK 210 DITHIONATE AND SEALED USING REMARK 210 OXY-ACETYLENE TORCH; 0.05 MM REMARK 210 TSP AS INTERNAL REFERENCE; 2MM REMARK 210 F35Y CYTOCHROME B5; 1MM REMARK 210 PHOSPHATE BUFFER; PURGED WITH REMARK 210 NITROGEN GAS AND REDUCED BY REMARK 210 ADDING FEW GRAINS OF SODIUM REMARK 210 DITHIONATE AND SEALED USING REMARK 210 OXY-ACETYLENE TORCH; 0.05 MM REMARK 210 TSP AS INTERNAL REFERENCE; 2MM REMARK 210 F35Y CYTOCHROME B5; 1MM REMARK 210 PHOSPHATE BUFFER; PURGED WITH REMARK 210 NITROGEN GAS AND REDUCED BY REMARK 210 ADDING FEW GRAINS OF SODIUM REMARK 210 DITHIONATE AND SEALED USING REMARK 210 OXY-ACETYLENE TORCH; 0.05 MM REMARK 210 TSP AS INTERNAL REFERENCE REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, HNHA, 3D_15N- REMARK 210 SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX 97, XWINNMR 2.0 REMARK 210 METHOD USED : TORSION ANGEL DYNAMICS REMARK 210 SIMULATED ANNEALING; REMARK 210 RESTRAINED ENERGY REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS, REMARK 210 STRUCTURES WITH THE LOWEST REMARK 210 ENERGY, TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING 2D AND 3D REMARK 210 EXPERIMENTS INCLUDING DISTANCE AND ANGULAR RESTRAINTS FROM HNHA
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: 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 11 -75.75 -61.64 REMARK 500 1 GLN A 13 -73.50 -55.00 REMARK 500 1 HIS A 15 45.88 -96.70 REMARK 500 1 HIS A 26 61.44 39.90 REMARK 500 1 LYS A 28 113.20 -169.96 REMARK 500 1 LEU A 32 39.66 -93.91 REMARK 500 1 ALA A 50 -92.11 -70.13 REMARK 500 1 HIS A 80 108.66 -38.68 REMARK 500 1 SER A 85 45.77 -90.85 REMARK 500 2 GLU A 11 -74.61 -61.61 REMARK 500 2 GLN A 13 -82.76 -61.80 REMARK 500 2 HIS A 15 48.31 -91.29 REMARK 500 2 HIS A 26 53.74 39.73 REMARK 500 2 LYS A 28 106.33 -169.95 REMARK 500 2 LEU A 32 36.29 -95.34 REMARK 500 2 ALA A 50 -90.11 -71.99 REMARK 500 2 THR A 55 -72.10 -50.43 REMARK 500 2 TYR A 74 41.61 -100.04 REMARK 500 2 HIS A 80 120.05 -38.52 REMARK 500 2 SER A 85 45.64 -109.37 REMARK 500 3 GLU A 11 -72.72 -61.71 REMARK 500 3 GLN A 13 -78.84 -59.40 REMARK 500 3 HIS A 15 43.67 -93.55 REMARK 500 3 HIS A 26 55.57 38.99 REMARK 500 3 LYS A 28 99.32 -168.91 REMARK 500 3 LEU A 32 44.95 -92.71 REMARK 500 3 GLU A 48 -36.43 -35.97 REMARK 500 3 GLN A 49 45.84 -143.24 REMARK 500 3 ALA A 50 -87.11 -65.48 REMARK 500 3 TYR A 74 37.94 -100.00 REMARK 500 3 HIS A 80 115.05 -37.84 REMARK 500 3 LYS A 86 30.76 -99.65 REMARK 500 4 GLU A 11 -73.53 -58.63 REMARK 500 4 GLN A 13 -78.97 -55.96 REMARK 500 4 HIS A 15 43.80 -94.13 REMARK 500 4 HIS A 26 60.31 38.83 REMARK 500 4 LYS A 28 107.07 -169.56 REMARK 500 4 LEU A 32 38.51 -90.81 REMARK 500 4 VAL A 45 -29.45 -39.86 REMARK 500 4 ALA A 50 -89.30 -68.50 REMARK 500 4 LYS A 86 35.36 -92.59 REMARK 500 5 GLU A 11 -75.66 -62.45 REMARK 500 5 GLN A 13 -70.42 -59.85 REMARK 500 5 HIS A 15 46.98 -89.76 REMARK 500 5 LYS A 28 106.20 -170.04 REMARK 500 5 LEU A 32 40.15 -92.54 REMARK 500 5 VAL A 45 -29.18 -39.98 REMARK 500 5 ALA A 50 -91.54 -70.74 REMARK 500 5 SER A 85 46.99 -93.18 REMARK 500 6 GLU A 11 -75.70 -60.09 REMARK 500 6 HIS A 15 44.38 -94.62 REMARK 500 6 HIS A 26 43.83 39.67 REMARK 500 6 LYS A 28 115.71 -166.03 REMARK 500 6 ALA A 50 -90.49 -77.39 REMARK 500 6 TYR A 74 40.65 -99.47 REMARK 500 6 HIS A 80 118.57 -39.04 REMARK 500 6 LYS A 86 38.61 -98.13 REMARK 500 7 GLU A 11 -75.29 -66.18 REMARK 500 7 GLN A 13 -73.66 -57.71 REMARK 500 7 HIS A 15 49.99 -92.23 REMARK 500 7 HIS A 26 55.91 39.81 REMARK 500 7 LYS A 28 101.71 -167.65 REMARK 500 7 LEU A 32 42.83 -89.45 REMARK 500 7 VAL A 45 -29.49 -39.94 REMARK 500 7 ALA A 50 -91.16 -73.01 REMARK 500 7 THR A 55 -72.06 -50.04 REMARK 500 7 HIS A 80 103.12 -38.42 REMARK 500 8 GLU A 11 -74.12 -57.77 REMARK 500 8 HIS A 15 43.39 -99.56 REMARK 500 8 HIS A 26 53.83 39.70 REMARK 500 8 LYS A 28 109.22 -169.40 REMARK 500 8 LEU A 32 42.66 -89.78 REMARK 500 8 VAL A 45 -29.24 -39.97 REMARK 500 8 ALA A 50 -93.10 -70.90 REMARK 500 8 TYR A 74 39.04 -99.85 REMARK 500 8 HIS A 80 112.83 -38.75 REMARK 500 9 GLU A 11 -73.38 -54.93 REMARK 500 9 HIS A 26 60.53 39.20 REMARK 500 9 LYS A 28 100.62 -169.41 REMARK 500 9 LEU A 32 54.22 -98.68 REMARK 500 9 VAL A 45 -29.14 -39.97 REMARK 500 9 ALA A 50 -93.97 -67.31 REMARK 500 9 HIS A 80 117.78 -37.39 REMARK 500 9 SER A 85 43.38 -103.36 REMARK 500 9 LYS A 86 36.33 -99.72 REMARK 500 10 GLU A 11 -75.05 -67.32 REMARK 500 10 GLN A 13 -77.65 -57.21 REMARK 500 10 HIS A 15 44.53 -94.22 REMARK 500 10 HIS A 26 36.32 37.64 REMARK 500 10 HIS A 27 48.20 70.00 REMARK 500 10 LYS A 28 127.17 -170.18 REMARK 500 10 ASP A 31 78.88 -64.73 REMARK 500 10 LEU A 32 41.68 -102.33 REMARK 500 10 ALA A 50 -91.01 -73.87 REMARK 500 10 SER A 85 53.65 -107.55 REMARK 500 11 GLU A 11 -71.20 -59.32 REMARK 500 11 GLN A 13 -81.27 -54.82 REMARK 500 11 HIS A 15 45.49 -95.13 REMARK 500 11 HIS A 26 54.40 39.97 REMARK 500 11 LYS A 28 103.13 -170.01 REMARK 500 11 LEU A 32 43.17 -99.42 REMARK 500 11 VAL A 45 -28.98 -39.88 REMARK 500 11 ALA A 50 -91.32 -74.37 REMARK 500 11 TYR A 74 41.81 -99.86 REMARK 500 11 SER A 85 46.21 -109.78 REMARK 500 11 LYS A 86 33.95 -98.70 REMARK 500 12 GLN A 13 -76.73 -48.44 REMARK 500 12 HIS A 15 44.40 -90.42 REMARK 500 12 HIS A 26 56.48 39.17 REMARK 500 12 LYS A 28 105.02 -170.08 REMARK 500 12 LEU A 32 41.98 -96.80 REMARK 500 12 VAL A 45 -29.68 -39.84 REMARK 500 12 ALA A 50 -89.47 -72.83 REMARK 500 12 TYR A 74 42.04 -100.04 REMARK 500 13 GLU A 11 -72.33 -59.74 REMARK 500 13 GLN A 13 -76.40 -59.93 REMARK 500 13 HIS A 15 44.83 -97.60 REMARK 500 13 LYS A 28 112.63 -170.09 REMARK 500 13 LEU A 32 37.87 -90.99 REMARK 500 13 ALA A 50 -93.24 -70.27 REMARK 500 13 HIS A 80 105.28 -32.41 REMARK 500 13 SER A 85 -99.79 -107.62 REMARK 500 14 GLU A 11 -76.12 -61.78 REMARK 500 14 GLN A 13 -74.00 -57.01 REMARK 500 14 HIS A 15 46.78 -93.26 REMARK 500 14 HIS A 26 38.25 37.72 REMARK 500 14 HIS A 27 51.51 70.13 REMARK 500 14 LYS A 28 132.09 -170.12 REMARK 500 14 VAL A 45 -29.17 -39.93 REMARK 500 14 ALA A 50 -88.63 -73.01 REMARK 500 14 TYR A 74 39.90 -99.95 REMARK 500 14 HIS A 80 111.69 -39.40 REMARK 500 14 SER A 85 31.84 -97.42 REMARK 500 15 HIS A 15 59.61 -94.36 REMARK 500 15 LYS A 28 107.74 -166.01 REMARK 500 15 LEU A 32 46.59 -98.24 REMARK 500 15 VAL A 45 -29.32 -39.87 REMARK 500 15 ALA A 50 -91.47 -67.99 REMARK 500 15 THR A 55 -71.54 -50.15 REMARK 500 15 TYR A 74 41.02 -100.12 REMARK 500 15 HIS A 80 113.46 -38.66 REMARK 500 15 SER A 85 50.36 -100.64 REMARK 500 16 GLU A 11 -70.55 -49.62 REMARK 500 16 LYS A 28 97.70 -170.09 REMARK 500 16 LEU A 32 41.64 -91.34 REMARK 500 16 VAL A 45 -29.57 -39.90 REMARK 500 16 ALA A 50 -94.49 -71.72 REMARK 500 16 TYR A 74 42.04 -99.81 REMARK 500 16 HIS A 80 110.65 -36.32 REMARK 500 16 LYS A 86 38.51 -95.66 REMARK 500 17 GLU A 11 -71.02 -48.73 REMARK 500 17 HIS A 15 59.45 -91.77 REMARK 500 17 HIS A 26 54.34 37.98 REMARK 500 17 LYS A 28 110.20 -169.97 REMARK 500 17 LEU A 32 43.17 -94.74 REMARK 500 17 ALA A 50 -94.97 -69.41 REMARK 500 17 TYR A 74 42.36 -100.17 REMARK 500 17 HIS A 80 107.41 -46.19 REMARK 500 17 SER A 85 44.34 -109.99 REMARK 500 17 LYS A 86 37.10 -90.90 REMARK 500 18 GLU A 11 -77.35 -59.89 REMARK 500 18 HIS A 15 47.87 -104.24 REMARK 500 18 HIS A 26 40.60 36.46 REMARK 500 18 LYS A 28 126.48 -170.19 REMARK 500 18 LEU A 32 37.74 -94.60 REMARK 500 18 VAL A 45 -28.99 -39.99 REMARK 500 18 ALA A 50 -91.48 -67.07 REMARK 500 18 HIS A 80 105.19 -36.90 REMARK 500 19 HIS A 26 39.90 37.27 REMARK 500 19 LYS A 28 127.45 -170.03 REMARK 500 19 LEU A 32 39.21 -95.85 REMARK 500 19 ALA A 50 -91.23 -73.01 REMARK 500 19 TYR A 74 38.78 -99.64 REMARK 500 19 HIS A 80 109.89 -38.60 REMARK 500 19 SER A 85 54.70 -108.74 REMARK 500 20 GLU A 11 -71.35 -49.04 REMARK 500 20 HIS A 15 55.07 -90.98 REMARK 500 20 HIS A 26 39.76 36.82 REMARK 500 20 LYS A 28 131.29 -170.15 REMARK 500 20 VAL A 45 -29.20 -39.89 REMARK 500 20 ALA A 50 -92.31 -71.79 REMARK 500 20 TYR A 74 39.87 -99.63 REMARK 500 20 HIS A 80 104.53 -40.19 REMARK 500 20 LYS A 86 36.83 -92.75 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 1 HEM A 95 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 63 NE2 REMARK 620 2 HIS A 39 NE2 172.9 REMARK 620 N 1
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM A 95
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1B5A RELATED DB: PDB REMARK 900 WILD TYPE FERRO CYTOCHROME B5, SOLUTION STRUCTURE
DBREF 1IB7 A 1 94 UNP P00173 CYB5_RAT 5 98
SEQADV 1IB7 TYR A 35 UNP P00173 PHE 39 ENGINEERED
SEQRES 1 A 94 ASP LYS ASP VAL LYS TYR TYR THR LEU GLU GLU ILE GLN SEQRES 2 A 94 LYS HIS LYS ASP SER LYS SER THR TRP VAL ILE LEU HIS SEQRES 3 A 94 HIS LYS VAL TYR ASP LEU THR LYS TYR LEU GLU GLU HIS SEQRES 4 A 94 PRO GLY GLY GLU GLU VAL LEU ARG GLU GLN ALA GLY GLY SEQRES 5 A 94 ASP ALA THR GLU ASN PHE GLU ASP VAL GLY HIS SER THR SEQRES 6 A 94 ASP ALA ARG GLU LEU SER LYS THR TYR ILE ILE GLY GLU SEQRES 7 A 94 LEU HIS PRO ASP ASP ARG SER LYS ILE ALA LYS PRO SER SEQRES 8 A 94 GLU THR LEU
HET HEM A 95 73
HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE
HETSYN HEM HEME
FORMUL 2 HEM C34 H32 FE N4 O4
HELIX 1 1 THR A 8 HIS A 15 1 8 HELIX 2 2 GLU A 43 GLU A 48 1 6 HELIX 3 3 ALA A 54 ASP A 60 1 7 HELIX 4 4 SER A 64 TYR A 74 1 11 HELIX 5 5 HIS A 80 SER A 85 1 6
SHEET 1 A 3 TYR A 6 TYR A 7 0 SHEET 2 A 3 ILE A 75 LEU A 79 1 O GLU A 78 N TYR A 7 SHEET 3 A 3 VAL A 29 TYR A 30 -1 N VAL A 29 O GLY A 77
LINK FE HEM A 95 NE2 HIS A 63 1555 1555 1.89 LINK FE HEM A 95 NE2 HIS A 39 1555 1555 2.10
SITE 1 AC1 16 TYR A 30 LEU A 32 TYR A 35 HIS A 39 SITE 2 AC1 16 VAL A 45 LEU A 46 ALA A 54 PHE A 58 SITE 3 AC1 16 VAL A 61 GLY A 62 HIS A 63 SER A 64 SITE 4 AC1 16 ASP A 66 ALA A 67 LEU A 70 SER A 71
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