2AQC - Header Asymmetric Unit

HEADER RNA BINDING PROTEIN 17-AUG-05 2AQC

TITLE NMR STRUCTURAL ANALYSIS OF ARCHAEAL NOP10

COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBOSOME BIOGENESIS PROTEIN NOP10; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCALDOCOCCUS JANNASCHII; SOURCE 3 ORGANISM_TAXID: 2190; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: ROSETTA PLYS S; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET 16B

KEYWDS ANOP10, ZINC-RIBBON, RNA BINDING PROTEIN

EXPDTA SOLUTION NMR

NUMMDL 20

AUTHOR T.HAMMA,S.L.REICHOW,G.VARANI,A.R.FERRE-D'AMARE

REVDAT 3 24-FEB-09 2AQC 1 VERSN REVDAT 2 03-JAN-06 2AQC 1 JRNL REVDAT 1 15-NOV-05 2AQC 0

JRNL AUTH T.HAMMA,S.L.REICHOW,G.VARANI,A.R.FERRE-D'AMARE JRNL TITL THE CBF5-NOP10 COMPLEX IS A MOLECULAR BRACKET THAT JRNL TITL 2 ORGANIZES BOX H/ACA RNPS. JRNL REF NAT.STRUCT.MOL.BIOL. V. 12 1101 2005 JRNL REFN ISSN 1545-9993 JRNL PMID 16286935 JRNL DOI 10.1038/NSMB1036

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA V. 2.0 REMARK 3 AUTHORS : GUNTERT, P. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL REMARK 3 OF 1172 RESTRAINTS, 1048 ARE NOE-DERIVED DISTANCE CONSTRAINTS, REMARK 3 40 DIHEDRAL ANGLE RESTRAINTS,56 DISTANCE RESTRAINTS FROM REMARK 3 HYDROGEN BONDS, 28 DISTANCE RESTRAINTS FOR ZN SITE GEOMETRY

REMARK 4 REMARK 4 2AQC COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-AUG-05. REMARK 100 THE RCSB ID CODE IS RCSB034188.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.0 REMARK 210 IONIC STRENGTH : 50; 100 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1MM ANOP10 UNLABELLED; SODIUM REMARK 210 ACETATE, KCL, 2MM DTT, 100UM REMARK 210 EXCESS ZNCL2; 1MM ANOP10 REMARK 210 UNLABELLED; SODIUM ACETATE, REMARK 210 KCL, 2MM DTT, 100UM EXCESS REMARK 210 ZNCL2; 1MM ANOP10 15N- REMARK 210 LABELLED; SODIUM ACETATE, KCL, REMARK 210 2MM DTT, 100UM EXCESS ZNCL2; REMARK 210 1MM ANOP10 15N,13C-LABELLED; REMARK 210 SODIUM ACETATE, KCL, 2MM DTT, REMARK 210 100UM EXCESS ZNCL2 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, 3D_15N-SEPARATED_ REMARK 210 NOESY, 3D_13C-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ, 750 MHZ, 800 MHZ REMARK 210 SPECTROMETER MODEL : DRX, DMX, INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER, VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE V. 2.3, SPARKY V. REMARK 210 3.110, TALOS V. 2003.027.13.05 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: DIHEDRAL RESTRAINTS DERIVED FROM TALOS PREDICTIONS. H- REMARK 210 BOND RESTRAINTS DERIVED FROM D20 PROTECTION ANALYSIS

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 ARG A 5 -176.68 -62.16 REMARK 500 1 LYS A 32 75.64 -113.92 REMARK 500 2 PRO A 31 -171.66 -69.78 REMARK 500 2 LYS A 32 76.07 -114.87 REMARK 500 2 PHE A 36 103.99 -54.39 REMARK 500 3 MET A 6 -176.18 -174.10 REMARK 500 3 PRO A 31 -171.76 -69.73 REMARK 500 3 LYS A 32 75.89 -113.81 REMARK 500 4 LYS A 32 75.62 -113.10 REMARK 500 4 PRO A 34 -172.33 -69.78 REMARK 500 4 LYS A 56 174.58 -57.98 REMARK 500 5 MET A 6 -169.02 -174.14 REMARK 500 5 LYS A 32 75.88 -115.92 REMARK 500 6 ARG A 5 145.66 -174.53 REMARK 500 6 MET A 6 -169.36 -174.36 REMARK 500 6 THR A 16 -179.96 -175.37 REMARK 500 6 PRO A 34 -175.11 -69.74 REMARK 500 6 ARG A 41 -71.96 -51.98 REMARK 500 6 LYS A 50 172.73 -54.60 REMARK 500 7 MET A 6 -177.03 -174.30 REMARK 500 7 LYS A 32 75.49 -112.93 REMARK 500 7 LYS A 35 88.97 51.88 REMARK 500 7 ARG A 41 -70.35 -61.27 REMARK 500 7 ASN A 57 103.66 -56.47 REMARK 500 9 HIS A 0 -63.62 -91.22 REMARK 500 9 PRO A 31 81.91 -69.79 REMARK 500 9 PRO A 34 -170.63 -69.79 REMARK 500 9 ASP A 40 170.16 -52.13 REMARK 500 10 THR A 16 -178.93 -176.05 REMARK 500 10 PRO A 31 98.71 -69.79 REMARK 500 10 LEU A 49 -74.86 -64.06 REMARK 500 11 MET A 6 -178.99 -174.33 REMARK 500 11 PRO A 34 -174.41 -69.84 REMARK 500 11 ASP A 40 103.45 -52.06 REMARK 500 11 ALA A 52 89.33 -167.21 REMARK 500 12 MET A 6 -172.07 -174.51 REMARK 500 12 PRO A 34 -172.77 -69.83 REMARK 500 13 PHE A 36 105.24 -160.48 REMARK 500 13 ASP A 40 97.57 -59.47 REMARK 500 14 THR A 16 -179.30 -175.92 REMARK 500 14 PHE A 36 -73.00 -55.62 REMARK 500 15 MET A 6 -169.50 -174.18 REMARK 500 16 MET A 6 -169.30 -174.56 REMARK 500 16 THR A 16 -179.56 -175.27 REMARK 500 16 ARG A 41 -74.27 -62.66 REMARK 500 17 MET A 4 177.81 -57.45 REMARK 500 17 MET A 6 -170.93 -174.40 REMARK 500 17 THR A 16 -179.37 -174.48 REMARK 500 17 PRO A 34 -179.08 -69.78 REMARK 500 17 PHE A 36 101.45 -58.19 REMARK 500 18 THR A 16 -179.77 -176.02 REMARK 500 18 PHE A 36 102.84 -52.59 REMARK 500 18 ARG A 51 -73.48 -63.79 REMARK 500 19 PRO A 31 84.92 -69.85 REMARK 500 19 PRO A 34 -179.32 -69.75 REMARK 500 19 LEU A 49 -74.95 -51.79 REMARK 500 20 PRO A 34 -170.97 -69.69 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 100 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 9 SG REMARK 620 2 CYS A 24 SG 121.6 REMARK 620 3 CYS A 21 SG 95.4 96.2 REMARK 620 4 CYS A 12 SG 119.9 108.8 110.1 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 100

DBREF 2AQC A 1 60 UNP P81303 NOP10_METJA 1 60

SEQADV 2AQC GLY A -2 UNP P81303 CLONING ARTIFACT SEQADV 2AQC SER A -1 UNP P81303 CLONING ARTIFACT SEQADV 2AQC HIS A 0 UNP P81303 CLONING ARTIFACT

SEQRES 1 A 63 GLY SER HIS MET VAL GLU MET ARG MET LYS LYS CYS PRO SEQRES 2 A 63 LYS CYS GLY LEU TYR THR LEU LYS GLU ILE CYS PRO LYS SEQRES 3 A 63 CYS GLY GLU LYS THR VAL ILE PRO LYS PRO PRO LYS PHE SEQRES 4 A 63 SER LEU GLU ASP ARG TRP GLY LYS TYR ARG ARG MET LEU SEQRES 5 A 63 LYS ARG ALA LEU LYS ASN LYS ASN LYS ALA GLU

HET ZN A 100 1

HETNAM ZN ZINC ION

FORMUL 2 ZN ZN 2+

HELIX 1 1 GLY A 43 LEU A 49 5 7

SHEET 1 A 2 LYS A 7 LYS A 8 0 SHEET 2 A 2 TYR A 15 THR A 16 -1 O THR A 16 N LYS A 7

LINK ZN ZN A 100 SG CYS A 9 1555 1555 2.36 LINK ZN ZN A 100 SG CYS A 24 1555 1555 2.33 LINK ZN ZN A 100 SG CYS A 21 1555 1555 2.67 LINK ZN ZN A 100 SG CYS A 12 1555 1555 2.32

SITE 1 AC1 4 CYS A 9 CYS A 12 CYS A 21 CYS A 24

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