HEADER ELECTRON TRANSPORT 10-NOV-16 5MCS TITLE SOLUTION STRUCTURE AND DYNAMICS OF THE OUTER MEMBRANE CYTOCHROME OMCF TITLE 2 FROM GEOBACTER SULFURREDUCENS COMPND MOL_ID: 1; COMPND 2 MOLECULE: LIPOPROTEIN CYTOCHROME C, 1 HEME-BINDING SITE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: OUTER MEMBRANE PROTEIN, OMCF; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GEOBACTER SULFURREDUCENS (STRAIN ATCC 51573 / SOURCE 3 DSM 12127 / PCA); SOURCE 4 ORGANISM_TAXID: 243231; SOURCE 5 GENE: OMCF, GSU2432; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI DH5[ALPHA]; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 668369 KEYWDS GEOBACTER SULFURREDUCENS, OUTER MEMBRANE CYTOCHROME, REDOX PROTEIN, KEYWDS 2 SOLUTION STRUCTURE, ELECTRON TRANSPORT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.M.DANTAS,M.A.SILVA,L.MORGADO,D.PANTOJA-UCEDA,D.L.TURNER,M.BRUIX, AUTHOR 2 C.A.SALGUEIRO REVDAT 4 14-JUN-23 5MCS 1 REMARK DBREF REVDAT 3 08-MAY-19 5MCS 1 REMARK REVDAT 2 12-JUL-17 5MCS 1 REVDAT 1 12-APR-17 5MCS 0 JRNL AUTH J.M.DANTAS,M.A.SILVA,D.PANTOJA-UCEDA,D.L.TURNER,M.BRUIX, JRNL AUTH 2 C.A.SALGUEIRO JRNL TITL SOLUTION STRUCTURE AND DYNAMICS OF THE OUTER MEMBRANE JRNL TITL 2 CYTOCHROME OMCF FROM GEOBACTER SULFURREDUCENS. JRNL REF BIOCHIM. BIOPHYS. ACTA V.1858 733 2017 JRNL REFN ISSN 0006-3002 JRNL PMID 28377068 JRNL DOI 10.1016/J.BBABIO.2017.03.007 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DYANA REMARK 3 AUTHORS : GUNTERT P. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5MCS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-NOV-16. REMARK 100 THE DEPOSITION ID IS D_1200002261. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 298; 298 REMARK 210 PH : 7; 7; 7 REMARK 210 IONIC STRENGTH : 100; 100; 100 REMARK 210 PRESSURE : 1 ATM; 1 ATM; 1 ATM REMARK 210 SAMPLE CONTENTS : 2 MM [U-13C; U-15N] OUTER REMARK 210 MEMBRANE PROTEIN, OMCF, 90% H2O/ REMARK 210 10% D2O; 2 MM OUTER MEMBRANE REMARK 210 PROTEIN, OMCF, 90% H2O/10% D2O; REMARK 210 2 MM OUTER MEMBRANE PROTEIN, REMARK 210 OMCF, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D CBCA(CO)NH; 3D HNCA; 3D REMARK 210 HNCACB; 3D HN(CO)CA; 3D HCCH- REMARK 210 TOCSY; 2D 1H-15N HSQC; 2D 1H-1H REMARK 210 COSY; 2D 1H-1H TOCSY; 2D 1H-1H REMARK 210 NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DYANA, SPARKY REMARK 210 METHOD USED : DISTANCE GEOMETRY REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 20 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5140 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 KCAL/MOL 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 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 ALA A 32 45.34 -92.00 REMARK 500 1 THR A 33 -39.21 -171.48 REMARK 500 1 CYS A 35 -47.71 -140.82 REMARK 500 1 ALA A 36 -36.58 -38.26 REMARK 500 1 CYS A 38 -31.62 168.28 REMARK 500 1 HIS A 39 61.22 -116.95 REMARK 500 1 ASP A 67 -37.26 -35.83 REMARK 500 1 ALA A 69 -41.95 -164.90 REMARK 500 1 PRO A 80 -147.95 -53.90 REMARK 500 1 VAL A 99 35.54 -97.75 REMARK 500 1 VAL A 100 20.38 -148.14 REMARK 500 1 SER A 102 -43.48 -161.16 REMARK 500 1 PHE A 103 77.80 -155.28 REMARK 500 2 ALA A 32 45.25 -93.14 REMARK 500 2 THR A 33 -39.12 -171.31 REMARK 500 2 CYS A 35 -47.15 -131.82 REMARK 500 2 ALA A 36 -34.81 -37.78 REMARK 500 2 CYS A 38 -31.76 168.70 REMARK 500 2 HIS A 39 61.09 -116.94 REMARK 500 2 ILE A 62 57.17 -142.13 REMARK 500 2 ARG A 63 59.24 -117.46 REMARK 500 2 ALA A 69 -42.60 -165.62 REMARK 500 2 PRO A 80 -145.33 -54.48 REMARK 500 2 VAL A 99 32.42 -97.20 REMARK 500 2 VAL A 100 21.31 -148.68 REMARK 500 2 SER A 102 -42.13 -165.32 REMARK 500 2 PHE A 103 72.22 -156.93 REMARK 500 3 ALA A 32 45.56 -91.55 REMARK 500 3 THR A 33 -40.03 -169.50 REMARK 500 3 CYS A 35 -46.94 -130.28 REMARK 500 3 ALA A 36 -35.70 -38.67 REMARK 500 3 CYS A 38 -31.47 168.43 REMARK 500 3 HIS A 39 61.24 -116.87 REMARK 500 3 ARG A 63 59.06 -114.18 REMARK 500 3 ALA A 69 -42.16 -165.81 REMARK 500 3 ILE A 72 -36.66 -39.77 REMARK 500 3 PRO A 80 -147.17 -53.79 REMARK 500 3 VAL A 99 30.82 -96.01 REMARK 500 3 SER A 102 -37.02 -179.77 REMARK 500 3 PHE A 103 75.01 -167.92 REMARK 500 4 ALA A 32 45.55 -92.49 REMARK 500 4 THR A 33 -39.61 -170.94 REMARK 500 4 CYS A 35 -47.27 -131.75 REMARK 500 4 ALA A 36 -35.59 -38.94 REMARK 500 4 CYS A 38 -31.39 168.24 REMARK 500 4 HIS A 39 60.79 -116.96 REMARK 500 4 ARG A 63 58.30 -113.20 REMARK 500 4 ALA A 69 -42.49 -162.48 REMARK 500 4 PRO A 80 -146.14 -53.98 REMARK 500 4 VAL A 99 34.89 -97.25 REMARK 500 REMARK 500 THIS ENTRY HAS 268 RAMACHANDRAN OUTLIERS. 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 HEC A 201 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 39 NE2 REMARK 620 2 HEC A 201 NA 86.5 REMARK 620 3 HEC A 201 NB 81.9 85.4 REMARK 620 4 HEC A 201 NC 91.0 175.7 90.8 REMARK 620 5 HEC A 201 ND 90.7 89.7 171.3 93.9 REMARK 620 6 MET A 79 SD 174.5 88.2 99.4 94.3 87.5 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 HEC A 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3CU4 RELATED DB: PDB REMARK 900 3CU4 IS THE SAME PROTEIN, BUT DETERMINED IN THE OXIDISED STATE REMARK 900 RELATED ID: 3DP5 RELATED DB: PDB REMARK 900 3DP5 IS THE SAME PROTEIN, BUT DETERMINED IN THE OXIDISED STATE REMARK 900 RELATED ID: 34064 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE AND DYNAMICS OF THE FIRST OUTER MEMBRANE REMARK 900 CYTOCHROME FROM GEOBACTER SULFURREDUCENS DBREF 5MCS A 25 104 UNP Q74AE4 Q74AE4_GEOSL 25 104 SEQRES 1 A 80 ALA GLY GLY GLY GLU LEU PHE ALA THR HIS CYS ALA GLY SEQRES 2 A 80 CYS HIS PRO GLN GLY GLY ASN THR VAL HIS PRO GLU LYS SEQRES 3 A 80 THR LEU ALA ARG ALA ARG ARG GLU ALA ASN GLY ILE ARG SEQRES 4 A 80 THR VAL ARG ASP VAL ALA ALA TYR ILE ARG ASN PRO GLY SEQRES 5 A 80 PRO GLY MET PRO ALA PHE GLY GLU ALA MET ILE PRO PRO SEQRES 6 A 80 ALA ASP ALA LEU LYS ILE GLY GLU TYR VAL VAL ALA SER SEQRES 7 A 80 PHE PRO HET HEC A 201 43 HETNAM HEC HEME C FORMUL 2 HEC C34 H34 FE N4 O4 HELIX 1 AA1 GLY A 26 CYS A 35 1 10 HELIX 2 AA2 HIS A 39 GLY A 43 5 5 HELIX 3 AA3 ALA A 53 GLY A 61 1 9 HELIX 4 AA4 ARG A 66 ASN A 74 1 9 HELIX 5 AA5 PRO A 88 LEU A 93 1 6 HELIX 6 AA6 LYS A 94 VAL A 99 1 6 LINK SG CYS A 35 CAB HEC A 201 1555 1555 1.85 LINK SG CYS A 38 CAC HEC A 201 1555 1555 1.81 LINK NE2 HIS A 39 FE HEC A 201 1555 1555 1.99 LINK SD MET A 79 FE HEC A 201 1555 1555 2.25 SITE 1 AC1 11 HIS A 34 CYS A 35 CYS A 38 HIS A 39 SITE 2 AC1 11 LYS A 50 LEU A 52 ILE A 62 PRO A 77 SITE 3 AC1 11 GLY A 78 MET A 79 PRO A 80 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