HEADER ELECTRON TRANSPORT 06-SEP-02 1MNY TITLE DIMETHYL PROPIONATE ESTER HEME-CONTAINING CYTOCHROME B5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME B5; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SOLUBLE DOMAIN, RESIDUES 5-98; COMPND 5 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; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: NM-522; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PUC13 KEYWDS HEME, IRON, MICROSOMAL MEMBRANE, ELECTRON TRANSPORT EXPDTA SOLUTION NMR MDLTYP MINIMIZED AVERAGE AUTHOR L.BANCI,I.BERTINI,B.R.BRANCHINI,P.HAJIEVA,G.A.SPYROULIAS,P.TURANO REVDAT 4 22-MAY-24 1MNY 1 REMARK REVDAT 3 23-FEB-22 1MNY 1 REMARK LINK REVDAT 2 24-FEB-09 1MNY 1 VERSN REVDAT 1 13-NOV-02 1MNY 0 JRNL AUTH L.BANCI,I.BERTINI,B.R.BRANCHINI,P.HAJIEVA,G.A.SPYROULIAS, JRNL AUTH 2 P.TURANO JRNL TITL DIMETHYL PROPIONATE ESTER HEME-CONTAINING CYTOCHROME B5: JRNL TITL 2 STRUCTURE AND STABILITY. JRNL REF J.BIOL.INORG.CHEM. V. 6 490 2001 JRNL REFN ISSN 0949-8257 JRNL PMID 11472013 JRNL DOI 10.1007/S007750100217 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DYANA, AMBER 5.0 REMARK 3 AUTHORS : REMARK 3 PEARLMAN,CASE,CALDWELL,ROSS,CHEATHAM,FERGUSON,SEIBEL,SINGH, REMARK 3 WEINER,KOLLMAN (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1MNY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-SEP-02. REMARK 100 THE DEPOSITION ID IS D_1000017042. 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 : 100 MM POTASSIUM PHOSPHATE REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D NOESY-15N HMQC REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : RESTRAINED ENERGY MINIMIZATION REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED 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 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 C ASP A 1 H LYS A 2 1.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ASP A 1 C LYS A 2 N -0.213 REMARK 500 REMARK 500 REMARK: NULL 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 ASP A 1 CA - C - N ANGL. DEV. = 15.6 DEGREES REMARK 500 ASP A 1 O - C - N ANGL. DEV. = -15.1 DEGREES REMARK 500 LYS A 2 C - N - CA ANGL. DEV. = 31.1 DEGREES REMARK 500 ASP A 3 OD1 - CG - OD2 ANGL. DEV. = -38.8 DEGREES REMARK 500 ASP A 3 CB - CG - OD1 ANGL. DEV. = 45.5 DEGREES REMARK 500 ASP A 3 CB - CG - OD2 ANGL. DEV. = -39.0 DEGREES REMARK 500 TRP A 22 NE1 - CE2 - CZ2 ANGL. DEV. = 8.9 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 LYS A 2 -60.76 -134.20 REMARK 500 LYS A 5 68.08 -101.55 REMARK 500 TYR A 6 107.66 -59.75 REMARK 500 LYS A 16 16.42 -155.87 REMARK 500 SER A 18 -52.20 -155.61 REMARK 500 LYS A 19 -64.24 -143.80 REMARK 500 HIS A 26 76.34 68.07 REMARK 500 LYS A 34 52.55 -90.33 REMARK 500 PHE A 35 26.46 -157.82 REMARK 500 LEU A 36 -83.22 -71.98 REMARK 500 GLU A 43 -65.40 -149.66 REMARK 500 ASP A 53 82.77 -66.82 REMARK 500 PHE A 58 -52.12 -142.10 REMARK 500 SER A 64 -168.49 -172.21 REMARK 500 ASP A 66 -45.95 -133.89 REMARK 500 ALA A 88 -61.00 160.59 REMARK 500 PRO A 90 97.46 -67.82 REMARK 500 SER A 91 86.58 -45.28 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 LYS A 2 ASP A 3 -146.07 REMARK 500 ASP A 3 VAL A 4 147.93 REMARK 500 LYS A 89 PRO A 90 135.72 REMARK 500 PRO A 90 SER A 91 48.80 REMARK 500 GLU A 92 THR A 93 -130.78 REMARK 500 THR A 93 LEU A 94 30.80 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 HDM A 95 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 39 NE2 REMARK 620 2 HDM A 95 NA 91.0 REMARK 620 3 HDM A 95 NB 100.0 89.0 REMARK 620 4 HDM A 95 NC 90.3 178.6 91.5 REMARK 620 5 HDM A 95 ND 81.8 89.8 177.8 89.7 REMARK 620 6 HIS A 63 NE2 171.1 83.2 86.7 95.4 91.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HDM A 95 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AQA RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF REDUCED MICROSOMAL RAT CYTOCHROME B5 REMARK 900 RELATED ID: 1AW3 RELATED DB: PDB REMARK 900 THE SOLUTION NMR STRUCTURE OF OXIDIZED RAT MICROSOMAL CYTOCHROME B5 REMARK 900 RELATED ID: 1BLV RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF OXIDIZED RAT MICROSOMAL CYTOCHROME B5 IN THE REMARK 900 PRESENCE OF 2 M GUANIDINIUM CHLORIDE DBREF 1MNY A 1 94 UNP P00173 CYB5_RAT 5 98 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 PHE 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 HDM A 95 81 HETNAM HDM DIMETHYL PROPIONATE ESTER HEME FORMUL 2 HDM C36 H36 FE N4 O4 HELIX 1 1 THR A 8 GLN A 13 1 6 HELIX 2 2 THR A 33 LEU A 36 5 4 HELIX 3 3 GLU A 43 GLU A 48 1 6 HELIX 4 4 THR A 55 ASP A 60 1 6 HELIX 5 5 ASP A 66 SER A 71 1 6 HELIX 6 6 HIS A 80 ILE A 87 1 8 SHEET 1 A 4 TYR A 6 TYR A 7 0 SHEET 2 A 4 ILE A 75 LEU A 79 1 O GLU A 78 N TYR A 7 SHEET 3 A 4 VAL A 29 ASP A 31 -1 N VAL A 29 O ILE A 76 SHEET 4 A 4 TRP A 22 ILE A 24 -1 N VAL A 23 O TYR A 30 LINK NE2 HIS A 39 FE HDM A 95 1555 1555 2.26 LINK NE2 HIS A 63 FE HDM A 95 1555 1555 1.94 SITE 1 AC1 12 LEU A 25 LEU A 32 PHE A 35 HIS A 39 SITE 2 AC1 12 PRO A 40 VAL A 45 LEU A 46 ASN A 57 SITE 3 AC1 12 PHE A 58 HIS A 63 ALA A 67 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