HEADER CHAPERONE 10-AUG-16 5SXY TITLE THE SOLUTION NMR STRUCTURE FOR THE PQQD TRUNCATION OF METHYLOBACTERIUM TITLE 2 EXTORQUENS PQQCD REPRESENTING A FUNCTIONAL AND STAND-ALONE TITLE 3 RIBOSOMALLY SYNTHESIZED AND POST-TRANSLATIONAL MODIFIED (RIPP) TITLE 4 RECOGNITION ELEMENT (RRE) COMPND MOL_ID: 1; COMPND 2 MOLECULE: BIFUNCTIONAL COENZYME PQQ SYNTHESIS PROTEIN C/D; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PYRROLOQUINOLINE QUINONE BIOSYNTHESIS PROTEIN C/D; COMPND 5 EC: 1.3.3.11; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHYLOBACTERIUM EXTORQUENS (STRAIN ATCC 14718 SOURCE 3 / DSM 1338 / AM1); SOURCE 4 ORGANISM_TAXID: 272630; SOURCE 5 STRAIN: ATCC 14718 / DSM 1338 / AM1; SOURCE 6 GENE: PQQCD, MEXAM1_META1P1749; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS RIPP RRE PEPTIDE SCAFFOLDING, CHAPERONE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR R.L.EVANS,Y.XIA,C.M.WILMOT REVDAT 5 01-MAY-24 5SXY 1 REMARK REVDAT 4 25-DEC-19 5SXY 1 REMARK REVDAT 3 27-SEP-17 5SXY 1 REMARK REVDAT 2 14-JUN-17 5SXY 1 JRNL REVDAT 1 24-MAY-17 5SXY 0 JRNL AUTH R.L.EVANS,J.A.LATHAM,Y.XIA,J.P.KLINMAN,C.M.WILMOT JRNL TITL NUCLEAR MAGNETIC RESONANCE STRUCTURE AND BINDING STUDIES OF JRNL TITL 2 PQQD, A CHAPERONE REQUIRED IN THE BIOSYNTHESIS OF THE JRNL TITL 3 BACTERIAL DEHYDROGENASE COFACTOR PYRROLOQUINOLINE QUINONE. JRNL REF BIOCHEMISTRY V. 56 2735 2017 JRNL REFN ISSN 1520-4995 JRNL PMID 28481092 JRNL DOI 10.1021/ACS.BIOCHEM.7B00247 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.L.EVANS,J.A.LATHAM,J.P.KLINMAN,C.M.WILMOT,Y.XIA REMARK 1 TITL 1H, 13C, AND 15N RESONANCE ASSIGNMENTS AND SECONDARY REMARK 1 TITL 2 STRUCTURE INFORMATION FOR METHYLOBACTERIUM EXTORQUENS PQQD REMARK 1 TITL 3 AND THE COMPLEX OF PQQD WITH PQQA REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH 2.37, PROTEIN STRUCTURE VALIDATION SUITE REMARK 3 (PSVS) 1.5 REMARK 3 AUTHORS : SCHWIETERS (XPLOR-NIH), HTTP://PSVS-1_5 REMARK 3 -DEV.NESG.ORG/ (PROTEIN STRUCTURE VALIDATION SUITE REMARK 3 (PSVS)) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5SXY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1000223248. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 25 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 4.6 MG/ML [U-13C; U-15N] PQQD, REMARK 210 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCACB; 2D 1H-15N HSQC; 3D REMARK 210 CBCA(CO)NH; 3D HNCO; 2D PLANE OF REMARK 210 3D HCACO; 3D HNHA; 3D H(CCO)NH; REMARK 210 3D C(CO)NH; 3D HCCH-TOCSY; 2D REMARK 210 HBCBCGCDHD; 2D HBCBCGCDCEHE; 2D REMARK 210 1H-13C HSQC AROMATIC; 2D 1H-13C REMARK 210 HSQC ALIPHATIC; 2D PLANE OF HCCH- REMARK 210 TOCSY FOR AROMATIC RING; 3D 15N- REMARK 210 EDITED NOESY; 3D 13C-EDITED NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 850 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3.1.6, NMRPIPE YEAR REMARK 210 2012, SPARKY 3 REMARK 210 METHOD USED : SIMULATED ANNEALING 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 : 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: 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 2 54.77 -167.48 REMARK 500 1 ALA A 5 62.72 -165.78 REMARK 500 1 ARG A 36 -98.68 -172.89 REMARK 500 2 ALA A 5 53.31 -166.23 REMARK 500 3 ALA A 5 93.12 45.76 REMARK 500 3 VAL A 91 11.82 -141.71 REMARK 500 4 GLU A 2 72.73 48.41 REMARK 500 4 PHE A 6 146.56 58.67 REMARK 500 5 THR A 4 -4.13 60.76 REMARK 500 5 ALA A 5 -40.52 69.63 REMARK 500 5 PHE A 6 107.72 56.74 REMARK 500 6 ALA A 5 -22.22 69.56 REMARK 500 6 PHE A 6 175.46 52.26 REMARK 500 6 ARG A 36 146.64 -174.67 REMARK 500 7 PRO A 3 155.45 -42.99 REMARK 500 7 ALA A 5 99.34 51.47 REMARK 500 7 VAL A 91 12.57 -141.54 REMARK 500 8 GLU A 2 147.35 -170.63 REMARK 500 8 ALA A 5 106.08 -163.72 REMARK 500 9 GLU A 2 73.58 45.50 REMARK 500 9 ARG A 36 -96.64 -172.26 REMARK 500 9 VAL A 91 16.42 -141.78 REMARK 500 10 GLU A 2 62.04 -166.53 REMARK 500 11 GLU A 2 71.60 -168.24 REMARK 500 11 VAL A 91 16.20 -141.46 REMARK 500 12 GLU A 2 51.14 -166.86 REMARK 500 12 THR A 4 94.16 49.13 REMARK 500 12 PHE A 6 174.96 52.44 REMARK 500 12 VAL A 91 16.61 -140.07 REMARK 500 13 GLU A 2 -57.92 -176.91 REMARK 500 13 PRO A 3 -86.85 -58.07 REMARK 500 13 THR A 4 67.32 -161.92 REMARK 500 13 ARG A 36 -122.28 -171.51 REMARK 500 13 ASP A 52 -86.81 -76.43 REMARK 500 14 GLU A 2 62.71 -168.00 REMARK 500 14 ALA A 5 88.08 52.38 REMARK 500 14 ARG A 36 149.07 -176.32 REMARK 500 15 THR A 4 34.59 -152.87 REMARK 500 15 ALA A 5 -34.92 -163.72 REMARK 500 15 PHE A 6 -172.81 50.70 REMARK 500 15 ARG A 36 148.68 -173.46 REMARK 500 16 GLU A 2 72.36 -169.35 REMARK 500 16 ALA A 5 91.65 51.82 REMARK 500 16 ASP A 52 -86.59 -78.60 REMARK 500 17 PRO A 3 42.88 -71.70 REMARK 500 17 ARG A 36 -123.76 -171.81 REMARK 500 18 ALA A 5 -84.13 -165.39 REMARK 500 18 PHE A 6 110.51 55.62 REMARK 500 18 ARG A 36 -120.03 -174.95 REMARK 500 19 GLU A 2 72.30 -169.89 REMARK 500 REMARK 500 THIS ENTRY HAS 51 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30153 RELATED DB: BMRB REMARK 900 THE SOLUTION NMR STRUCTURE FOR THE PQQD TRUNCATION OF REMARK 900 METHYLOBACTERIUM EXTORQUENS PQQCD REPRESENTING A FUNCTIONAL AND REMARK 900 STAND-ALONE RIBOSOMALLY SYNTHESIZED AND POST-TRANSLATIONAL MODIFIED REMARK 900 (RIPP) RECOGNITION ELEMENT (RRE) DBREF 5SXY A 2 94 UNP Q49150 PQQCD_METEA 280 372 SEQADV 5SXY MET A 1 UNP Q49150 INITIATING METHIONINE SEQRES 1 A 94 MET GLU PRO THR ALA PHE SER GLY SER ASP VAL PRO ARG SEQRES 2 A 94 LEU PRO ARG GLY VAL ARG LEU ARG PHE ASP GLU VAL ARG SEQRES 3 A 94 ASN LYS HIS VAL LEU LEU ALA PRO GLU ARG THR PHE ASP SEQRES 4 A 94 LEU ASP ASP ASN ALA VAL ALA VAL LEU LYS LEU VAL ASP SEQRES 5 A 94 GLY ARG ASN THR VAL SER GLN ILE ALA GLN ILE LEU GLY SEQRES 6 A 94 GLN THR TYR ASP ALA ASP PRO ALA ILE ILE GLU ALA ASP SEQRES 7 A 94 ILE LEU PRO MET LEU ALA GLY LEU ALA GLN LYS ARG VAL SEQRES 8 A 94 LEU GLU ARG HELIX 1 AA1 ASP A 41 VAL A 51 1 11 HELIX 2 AA2 THR A 56 ASP A 69 1 14 HELIX 3 AA3 ASP A 71 GLN A 88 1 18 SHEET 1 AA1 3 LEU A 20 ASP A 23 0 SHEET 2 AA1 3 LYS A 28 LEU A 32 -1 O LYS A 28 N ASP A 23 SHEET 3 AA1 3 THR A 37 ASP A 39 -1 O PHE A 38 N LEU A 31 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