10 20 30 40 50 60 70 80 1EF4 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSFERASE 07-FEB-00 1EF4
TITLE SOLUTION STRUCTURE OF THE ESSENTIAL RNA POLYMERASE SUBUNIT TITLE 2 RPB10 FROM METHANOBACTERIUM THERMOAUTOTROPHICUM
COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA-DIRECTED RNA POLYMERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SUBUNIT RPB10; COMPND 5 SYNONYM: SUBUNIT N; COMPND 6 EC: 2.7.7.6; COMPND 7 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOTHERMOBACTER SOURCE 3 THERMAUTOTROPHICUS; SOURCE 4 ORGANISM_TAXID: 145262; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET15B
KEYWDS THREE HELIX BUNDLE, ZINC BINDING, STRUCTURAL GENOMICS, PSI, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, NORTHEAST STRUCTURAL GENOMICS KEYWDS 3 CONSORTIUM, NESG, TRANSFERASE
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR C.D.MACKERETH,C.H.ARROWSMITH,A.M.EDWARDS,L.P.MCINTOSH, AUTHOR 2 NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG)
REVDAT 4 24-FEB-09 1EF4 1 VERSN REVDAT 3 25-JAN-05 1EF4 1 JRNL AUTHOR KEYWDS REMARK REVDAT 2 02-AUG-00 1EF4 1 JRNL REVDAT 1 14-JUN-00 1EF4 0
JRNL AUTH C.D.MACKERETH,C.H.ARROWSMITH,A.M.EDWARDS, JRNL AUTH 2 L.P.MCINTOSH JRNL TITL ZINC-BUNDLE STRUCTURE OF THE ESSENTIAL RNA JRNL TITL 2 POLYMERASE SUBUNIT RPB10 FROM METHANOBACTERIUM JRNL TITL 3 THERMOAUTOTROPHICUM. JRNL REF PROC.NATL.ACAD.SCI.USA V. 97 6316 2000 JRNL REFN ISSN 0027-8424 JRNL PMID 10841539 JRNL DOI 10.1073/PNAS.97.12.6316
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851, ARIA 1999 REMARK 3 AUTHORS : BRUNGER (X-PLOR), NILGES (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINED USING ARIA AMBIGUOUS AND REMARK 3 UNAMBIGUOUS RESTRAINTS, AND INCLUDING RESTRAINTS FOR DIHEDRAL REMARK 3 ANGLES AND HYDROGEN BOND DISTANCES. ZINC COORDINATION TO CYS REMARK 3 6,9,43,44 WITH IDEALIZED TETRAHEDRAL RESTRAINTS WERE ADDED IN REMARK 3 THE FINAL ROUNDS OF REFINEMENT; THE COORDINATING LIGANDS AND REMARK 3 THEIR GEOMETRIC ARRANGEMENT WERE IDENTIFIED BASED ON INITIAL REMARK 3 NOE-DERIVED STRUCTURES CALCULATED WITHOUT INCLUSION OF THE REMARK 3 METAL ION. THREE N- TERMINAL RESIDUES (GLY-SER-HIS) REMAINING REMARK 3 FROM CLEAVAGE OF THE HIS-TAG WERE DISORDERED AND NOT INCLUDED REMARK 3 IN THE FINAL ENSEMBLE.
REMARK 4 REMARK 4 1EF4 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-FEB-00. REMARK 100 THE RCSB ID CODE IS RCSB010516.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303.00 REMARK 210 PH : 7.50 REMARK 210 IONIC STRENGTH : 150MM_NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5MM RPB10 U-15N,13C 20MM REMARK 210 DEUTERATED D-TRIS; 0.15M NACL; REMARK 210 2MM BETA- MERCAPTOETHANOL; 99% REMARK 210 D2O, 1% H2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D METHYL-METHYL 13C_ REMARK 210 SEPARATED NOESY, 2D NOESY, 3D_ REMARK 210 13C-SEPARATED_ NOESY, 3D_15N- REMARK 210 SEPARATED_ NOESY, HNHA, 2D CT- REMARK 210 HMQC-J REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : UNITY REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR 6, FELIX 95.0 REMARK 210 METHOD USED : DISTANCE GEOMETRY WITH REMARK 210 SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 60 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH ACCEPTABLE REMARK 210 COVALENT GEOMETRY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING TRIPLE- RESONANCE REMARK 210 NMR SPECTROSCOPY.
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 VAL A 4 -76.51 65.18 REMARK 500 1 ARG A 5 -178.73 -53.26 REMARK 500 1 SER A 8 -55.96 -179.40 REMARK 500 1 ASP A 29 107.62 -56.72 REMARK 500 1 ARG A 41 132.68 63.63 REMARK 500 1 HIS A 51 -73.89 -87.66 REMARK 500 1 VAL A 52 56.19 34.93 REMARK 500 1 GLU A 53 90.98 -51.18 REMARK 500 2 VAL A 4 -67.88 66.53 REMARK 500 2 ARG A 5 -168.30 -75.18 REMARK 500 2 CYS A 6 -157.56 -58.33 REMARK 500 2 LEU A 7 30.94 84.74 REMARK 500 2 SER A 8 -76.12 -174.83 REMARK 500 2 LYS A 40 150.88 64.97 REMARK 500 2 ARG A 41 148.53 60.27 REMARK 500 2 LEU A 48 -70.14 -70.63 REMARK 500 2 SER A 50 -78.38 -76.82 REMARK 500 2 VAL A 52 68.05 35.57 REMARK 500 3 VAL A 4 159.85 60.69 REMARK 500 3 ARG A 5 -178.20 74.13 REMARK 500 3 SER A 8 -45.16 177.64 REMARK 500 3 LYS A 40 -80.66 59.57 REMARK 500 3 ARG A 46 -39.37 -38.65 REMARK 500 3 VAL A 52 108.77 -41.48 REMARK 500 3 THR A 54 80.59 53.29 REMARK 500 4 VAL A 4 -77.91 64.45 REMARK 500 4 ARG A 5 179.27 -55.86 REMARK 500 4 CYS A 6 -164.38 -57.84 REMARK 500 4 LEU A 7 28.61 93.42 REMARK 500 4 SER A 8 -72.92 173.69 REMARK 500 4 LYS A 40 -171.82 -54.69 REMARK 500 4 ARG A 41 -49.99 84.29 REMARK 500 4 TYR A 42 -23.92 89.77 REMARK 500 4 ILE A 49 -32.70 -39.66 REMARK 500 4 HIS A 51 -77.54 -87.32 REMARK 500 4 VAL A 52 94.43 34.26 REMARK 500 5 VAL A 4 -76.53 64.98 REMARK 500 5 ARG A 5 -179.64 -55.40 REMARK 500 5 SER A 8 -60.18 -179.06 REMARK 500 5 SER A 14 -72.75 -63.20 REMARK 500 5 ASP A 29 109.83 -55.67 REMARK 500 5 ARG A 41 -42.09 -148.54 REMARK 500 5 TYR A 42 -39.10 89.91 REMARK 500 5 SER A 50 -76.84 -86.88 REMARK 500 5 VAL A 52 27.70 44.99 REMARK 500 5 GLU A 53 75.26 47.23 REMARK 500 6 VAL A 4 161.66 60.93 REMARK 500 6 ARG A 5 -161.12 79.83 REMARK 500 6 SER A 8 -61.54 -172.64 REMARK 500 6 LEU A 39 109.89 -41.26 REMARK 500 6 ARG A 41 129.95 61.73 REMARK 500 6 VAL A 52 108.18 -40.74 REMARK 500 7 VAL A 4 -75.45 65.56 REMARK 500 7 CYS A 6 -153.78 -59.68 REMARK 500 7 LEU A 7 22.32 91.33 REMARK 500 7 SER A 8 -70.80 -175.74 REMARK 500 7 ARG A 41 138.07 61.44 REMARK 500 7 LEU A 48 -70.25 -79.50 REMARK 500 7 HIS A 51 -77.36 -87.58 REMARK 500 7 VAL A 52 97.31 35.55 REMARK 500 7 THR A 54 77.25 50.02 REMARK 500 8 ILE A 2 65.77 61.70 REMARK 500 8 VAL A 4 -26.55 149.55 REMARK 500 8 CYS A 6 100.61 -58.00 REMARK 500 8 SER A 8 -75.03 -173.32 REMARK 500 8 ALA A 15 -63.32 69.27 REMARK 500 8 LYS A 40 -86.26 -45.69 REMARK 500 8 SER A 50 -74.04 -87.64 REMARK 500 8 VAL A 52 76.55 45.92 REMARK 500 8 GLU A 53 94.13 -47.40 REMARK 500 8 THR A 54 40.06 -97.42 REMARK 500 9 VAL A 4 154.01 151.46 REMARK 500 9 ARG A 5 -170.29 78.08 REMARK 500 9 CYS A 6 -156.65 -58.91 REMARK 500 9 LEU A 7 34.42 83.83 REMARK 500 9 SER A 8 -72.58 169.75 REMARK 500 9 CYS A 9 27.21 47.11 REMARK 500 9 LEU A 39 113.86 -39.05 REMARK 500 9 LYS A 40 -73.20 -78.16 REMARK 500 9 ARG A 46 -35.28 -39.51 REMARK 500 9 ILE A 49 -30.10 -38.26 REMARK 500 9 SER A 50 -79.05 -82.00 REMARK 500 9 VAL A 52 29.29 42.38 REMARK 500 9 GLU A 53 96.89 47.75 REMARK 500 10 PRO A 3 43.88 -86.49 REMARK 500 10 VAL A 4 -73.02 -170.60 REMARK 500 10 ARG A 5 175.68 -57.21 REMARK 500 10 SER A 8 -79.33 -164.75 REMARK 500 10 LYS A 40 -90.06 54.15 REMARK 500 10 ARG A 46 -39.32 -39.49 REMARK 500 10 SER A 50 -72.47 -87.09 REMARK 500 10 VAL A 52 71.88 37.85 REMARK 500 11 VAL A 4 -73.43 65.38 REMARK 500 11 ARG A 5 -173.36 -67.73 REMARK 500 11 CYS A 6 -162.12 -57.17 REMARK 500 11 LEU A 7 32.83 92.19 REMARK 500 11 SER A 8 -67.93 178.87 REMARK 500 11 CYS A 9 25.83 48.54 REMARK 500 11 LEU A 39 -160.94 -101.24 REMARK 500 11 LYS A 40 -88.08 -108.26 REMARK 500 11 LEU A 48 -70.80 -75.65 REMARK 500 11 ILE A 49 -31.15 -39.81 REMARK 500 11 SER A 50 -77.38 -77.76 REMARK 500 11 HIS A 51 -72.82 -88.02 REMARK 500 11 GLU A 53 96.59 61.05 REMARK 500 12 VAL A 4 167.55 152.91 REMARK 500 12 ARG A 5 -166.62 81.30 REMARK 500 12 SER A 8 -67.73 -170.56 REMARK 500 12 LYS A 40 -171.37 -67.62 REMARK 500 12 ARG A 41 -174.46 47.48 REMARK 500 12 TYR A 42 14.67 -141.95 REMARK 500 12 SER A 50 -77.84 -80.89 REMARK 500 12 HIS A 51 -74.70 -87.65 REMARK 500 12 VAL A 52 28.98 44.98 REMARK 500 12 GLU A 53 108.80 62.56 REMARK 500 13 VAL A 4 -77.11 64.50 REMARK 500 13 ARG A 5 -172.06 -52.25 REMARK 500 13 SER A 8 -55.72 -174.56 REMARK 500 13 ASP A 29 108.00 -58.92 REMARK 500 13 LYS A 40 144.50 66.39 REMARK 500 13 ARG A 41 139.46 61.04 REMARK 500 13 SER A 50 -78.60 -84.60 REMARK 500 13 VAL A 52 29.42 46.08 REMARK 500 13 GLU A 53 -88.47 59.20 REMARK 500 14 VAL A 4 -76.86 65.00 REMARK 500 14 ARG A 5 176.69 -54.67 REMARK 500 14 SER A 8 -69.19 -177.55 REMARK 500 14 LYS A 40 -172.62 -54.04 REMARK 500 14 ARG A 41 -54.34 71.65 REMARK 500 14 TYR A 42 -23.42 93.03 REMARK 500 14 SER A 50 -76.70 -84.74 REMARK 500 14 VAL A 52 94.67 37.37 REMARK 500 15 VAL A 4 -77.13 64.68 REMARK 500 15 ARG A 5 175.92 -56.50 REMARK 500 15 SER A 8 -62.22 -175.15 REMARK 500 15 ASP A 29 109.59 -57.61 REMARK 500 15 ARG A 41 148.13 60.57 REMARK 500 15 SER A 50 -77.10 -83.57 REMARK 500 15 HIS A 51 -77.07 -87.95 REMARK 500 15 VAL A 52 135.61 54.36 REMARK 500 16 VAL A 4 -76.18 64.89 REMARK 500 16 SER A 8 -72.10 -171.81 REMARK 500 16 ASP A 29 107.82 -57.22 REMARK 500 16 LYS A 40 -89.12 -40.33 REMARK 500 16 ARG A 46 -33.22 -36.78 REMARK 500 16 SER A 50 -77.89 -87.45 REMARK 500 16 VAL A 52 95.65 43.58 REMARK 500 17 VAL A 4 -76.96 64.81 REMARK 500 17 ARG A 5 -174.09 -54.74 REMARK 500 17 SER A 8 -66.71 -173.79 REMARK 500 17 ASP A 29 109.94 -56.16 REMARK 500 17 LYS A 40 -85.82 -56.12 REMARK 500 17 ILE A 49 -30.44 -38.95 REMARK 500 17 SER A 50 -77.31 -85.78 REMARK 500 17 GLU A 53 -68.51 70.63 REMARK 500 17 THR A 54 96.23 52.29 REMARK 500 18 VAL A 4 160.93 60.75 REMARK 500 18 ARG A 5 -161.86 80.00 REMARK 500 18 SER A 8 -64.19 -170.38 REMARK 500 18 ARG A 41 138.09 60.94 REMARK 500 18 SER A 50 -71.53 -82.86 REMARK 500 18 HIS A 51 -77.04 -87.66 REMARK 500 18 GLU A 53 -160.05 66.52 REMARK 500 19 VAL A 4 -76.77 64.84 REMARK 500 19 ARG A 5 -175.64 -51.95 REMARK 500 19 SER A 8 -67.56 -167.41 REMARK 500 19 LYS A 40 155.26 58.73 REMARK 500 19 ARG A 41 110.29 56.95 REMARK 500 19 HIS A 51 -78.09 -87.71 REMARK 500 19 VAL A 52 100.15 32.68 REMARK 500 19 THR A 54 136.00 65.58 REMARK 500 20 VAL A 4 168.72 152.79 REMARK 500 20 ARG A 5 -163.24 80.30 REMARK 500 20 SER A 8 -66.20 -173.78 REMARK 500 20 PRO A 12 134.46 -38.82 REMARK 500 20 ARG A 23 -72.03 -61.80 REMARK 500 20 LYS A 40 -78.10 -45.97 REMARK 500 20 SER A 50 -73.47 -80.26 REMARK 500 20 HIS A 51 -76.41 -87.20 REMARK 500 20 VAL A 52 98.47 36.74 REMARK 500 20 GLU A 53 101.03 -47.66 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 ZN A 56 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 9 SG REMARK 620 2 CYS A 44 SG 112.7 REMARK 620 3 CYS A 6 SG 111.8 111.1 REMARK 620 4 CYS A 43 SG 104.7 102.1 113.9 REMARK 620 N 1 2 3
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 56
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: TT11 RELATED DB: TARGETDB
DBREF 1EF4 A 1 55 UNP O26147 RPON_METTH 1 55
SEQRES 1 A 55 MET ILE PRO VAL ARG CYS LEU SER CYS GLY LYS PRO VAL SEQRES 2 A 55 SER ALA TYR PHE ASN GLU TYR GLN ARG ARG VAL ALA ASP SEQRES 3 A 55 GLY GLU ASP PRO LYS ASP VAL LEU ASP ASP LEU GLY LEU SEQRES 4 A 55 LYS ARG TYR CYS CYS ARG ARG MET LEU ILE SER HIS VAL SEQRES 5 A 55 GLU THR TRP
HET ZN A 56 1
HETNAM ZN ZINC ION
FORMUL 2 ZN ZN 2+
HELIX 1 1 SER A 14 ASP A 26 1 13 HELIX 2 2 PRO A 30 LEU A 37 1 8 HELIX 3 3 CYS A 43 LEU A 48 1 6
LINK ZN ZN A 56 SG CYS A 9 1555 1555 2.23 LINK ZN ZN A 56 SG CYS A 44 1555 1555 2.30 LINK ZN ZN A 56 SG CYS A 6 1555 1555 2.22 LINK ZN ZN A 56 SG CYS A 43 1555 1555 2.32
SITE 1 AC1 4 CYS A 6 CYS A 9 CYS A 43 CYS A 44
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