HEADER ELECTRON TRANSPORT 12-MAR-01 1I87 TITLE SOLUTION STRUCTURE OF THE WATER-SOLUBLE FRAGMENT OF RAT HEPATIC TITLE 2 APOCYTOCHROME B5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME B5; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: WATER-SOLUBLE DOMAIN (RESIDUES 1-98); COMPND 5 SYNONYM: APOCYTOCHROME B5; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: NORWAY RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET3D KEYWDS APO HEMOPROTEIN, ELECTRON TRANSPORT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR C.J.FALZONE,Y.WANG,B.C.VU,N.L.SCOTT,S.BHATTACHARYA,J.T.LECOMTE REVDAT 3 23-FEB-22 1I87 1 REMARK REVDAT 2 24-FEB-09 1I87 1 VERSN REVDAT 1 16-MAY-01 1I87 0 JRNL AUTH C.J.FALZONE,Y.WANG,B.C.VU,N.L.SCOTT,S.BHATTACHARYA, JRNL AUTH 2 J.T.LECOMTE JRNL TITL STRUCTURAL AND DYNAMIC PERTURBATIONS INDUCED BY HEME BINDING JRNL TITL 2 IN CYTOCHROME B5. JRNL REF BIOCHEMISTRY V. 40 4879 2001 JRNL REFN ISSN 0006-2960 JRNL PMID 11294656 JRNL DOI 10.1021/BI002681G REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.J.FALZONE,M.R.MAYER,E.L.WHITEMAN,C.D.MOORE,J.T.J.LECOMTE REMARK 1 TITL DESIGN CHALLENGES FOR HEMOPROTEINS: THE SOLUTION STRUCTURE REMARK 1 TITL 2 OF APOCYTOCHROME B5 REMARK 1 REF BIOCHEMISTRY V. 35 6519 1996 REMARK 1 REFN ISSN 0006-2960 REMARK 1 DOI 10.1021/BI960501Q REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.5, X-PLOR 3.851 REMARK 3 AUTHORS : BRUKER (XWINNMR), BRUNGER (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HIS 26, 27, 39, 63, AND 80 WERE REMARK 3 PROTONATED AT THE NE2 POSITION IN ACCORDANCE TO 15N NMR DATA. REMARK 3 HIS 15 HAS A HIGH PK AND WAS PROTONATED AT THE ND1 AND NE2 REMARK 3 POSITIONS. ADDITIONAL DETAILS ARE PROVIDED IN THE PRIMARY REMARK 3 CITATION. REMARK 4 REMARK 4 1I87 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-MAR-01. REMARK 100 THE DEPOSITION ID IS D_1000013026. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.2 REMARK 210 IONIC STRENGTH : LOW REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM APOCYTOCHROME B5, 13C,15N; REMARK 210 1 MM APOCYTOCHROME B5, 15N; 2 MM REMARK 210 APOCYTOCHROME B5; 2 MM REMARK 210 APOCYTOCHROME B5 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; 2D-NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX 97, X-PLOR 3.851 REMARK 210 METHOD USED : DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 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 : NULL REMARK 210 REMARK 210 REMARK: THE AMINO ACID SEQUENCE NUMBERING FOLLOWS THE BOVINE REMARK 210 SCHEME, WITH THE FIRST FOUR RESIDUES GIVEN NEGATIVE VALUES. REMARK 210 THESE FOUR RESIDUES ARE DISORDERED AND NOT INCLUDED IN THE REMARK 210 COORDINATES. 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 ALA A -3 REMARK 465 GLU A -2 REMARK 465 GLN A -1 REMARK 465 SER 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 LYS A 2 28.97 -151.86 REMARK 500 1 VAL A 4 101.91 53.64 REMARK 500 1 TYR A 7 -168.69 -61.74 REMARK 500 1 GLN A 13 48.69 -90.35 REMARK 500 1 LYS A 14 28.88 -150.35 REMARK 500 1 HIS A 15 48.10 -101.66 REMARK 500 1 ASP A 17 -157.97 -110.95 REMARK 500 1 SER A 18 -159.34 52.99 REMARK 500 1 LYS A 19 -155.20 -121.76 REMARK 500 1 SER A 20 98.53 53.13 REMARK 500 1 TRP A 22 76.64 -107.29 REMARK 500 1 LEU A 25 -76.20 -86.16 REMARK 500 1 HIS A 26 -53.01 -125.29 REMARK 500 1 HIS A 27 20.65 -141.31 REMARK 500 1 PRO A 40 91.66 -53.05 REMARK 500 1 GLU A 43 -87.08 55.53 REMARK 500 1 ARG A 47 75.36 52.23 REMARK 500 1 GLU A 48 40.01 -169.13 REMARK 500 1 ASP A 53 79.89 52.72 REMARK 500 1 ALA A 54 -166.87 52.66 REMARK 500 1 THR A 55 47.49 -100.31 REMARK 500 1 GLU A 56 -153.80 52.74 REMARK 500 1 PHE A 58 -158.51 -170.33 REMARK 500 1 ASP A 66 49.89 -94.49 REMARK 500 1 ARG A 68 -50.67 -135.58 REMARK 500 1 SER A 71 43.35 -94.54 REMARK 500 1 LYS A 72 -67.58 -146.11 REMARK 500 1 ARG A 84 -172.63 -56.11 REMARK 500 1 LYS A 86 75.69 -169.61 REMARK 500 1 SER A 91 -159.26 52.78 REMARK 500 1 THR A 93 -45.25 -140.63 REMARK 500 2 VAL A 4 166.28 56.79 REMARK 500 2 TYR A 7 -168.78 -61.76 REMARK 500 2 GLN A 13 49.13 -90.19 REMARK 500 2 LYS A 14 32.47 -159.95 REMARK 500 2 LYS A 16 32.67 -167.70 REMARK 500 2 ASP A 17 -40.44 -168.57 REMARK 500 2 LYS A 19 173.67 55.85 REMARK 500 2 SER A 20 179.43 53.45 REMARK 500 2 TRP A 22 75.45 -104.42 REMARK 500 2 HIS A 26 -39.69 -170.08 REMARK 500 2 HIS A 27 -44.29 -138.98 REMARK 500 2 LEU A 32 48.41 -88.33 REMARK 500 2 PRO A 40 103.25 -53.00 REMARK 500 2 GLU A 43 -86.70 56.28 REMARK 500 2 GLN A 49 -178.21 53.01 REMARK 500 2 ALA A 50 87.41 52.78 REMARK 500 2 ALA A 54 42.62 -94.72 REMARK 500 2 ASP A 60 -155.95 38.47 REMARK 500 2 VAL A 61 63.83 -117.27 REMARK 500 REMARK 500 THIS ENTRY HAS 541 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1I8C RELATED DB: PDB REMARK 900 MINIMIZED AVERAGE STRUCTURE CALCULATED FROM THIS ENSEMBLE DBREF 1I87 A -3 94 UNP P00173 CYB5_RAT 1 98 SEQRES 1 A 98 ALA GLU GLN SER ASP LYS ASP VAL LYS TYR TYR THR LEU SEQRES 2 A 98 GLU GLU ILE GLN LYS HIS LYS ASP SER LYS SER THR TRP SEQRES 3 A 98 VAL ILE LEU HIS HIS LYS VAL TYR ASP LEU THR LYS PHE SEQRES 4 A 98 LEU GLU GLU HIS PRO GLY GLY GLU GLU VAL LEU ARG GLU SEQRES 5 A 98 GLN ALA GLY GLY ASP ALA THR GLU ASN PHE GLU ASP VAL SEQRES 6 A 98 GLY HIS SER THR ASP ALA ARG GLU LEU SER LYS THR TYR SEQRES 7 A 98 ILE ILE GLY GLU LEU HIS PRO ASP ASP ARG SER LYS ILE SEQRES 8 A 98 ALA LYS PRO SER GLU THR LEU HELIX 1 1 THR A 8 GLN A 13 1 6 HELIX 2 2 LEU A 32 GLU A 37 1 6 SHEET 1 A 4 TYR A 6 TYR A 7 0 SHEET 2 A 4 GLY A 77 LEU A 79 1 O GLU A 78 N TYR A 7 SHEET 3 A 4 LYS A 28 ASP A 31 -1 N VAL A 29 O GLY A 77 SHEET 4 A 4 TRP A 22 ILE A 24 -1 O VAL A 23 N TYR A 30 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