HEADER HYDROLASE/RNA 26-MAR-11 3R9W TITLE CRYSTAL STRUCTURE OF ERA IN COMPLEX WITH MGGDPNP AND NUCLEOTIDES 1506- TITLE 2 1542 OF 16S RIBOSOMAL RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTPASE ERA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: RNA301; COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS; SOURCE 3 ORGANISM_TAXID: 63363; SOURCE 4 GENE: AQ_1994, ERA, ERA1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PDONR201; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 OTHER_DETAILS: THIS SEQUENCE OCCURS NATURALLY IN AQUIFEX AEOLICUS SOURCE 13 EXCEPT FOR U1506 THAT IS REPLACED WITH C1506. KEYWDS GTPASE, KH DOMAIN, RIBOSOME, BIOGENESIS, GTP, 16S RIBOSOMAL RNA, GTP KEYWDS 2 HYDROLYSIS, HYDROLASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.TU,X.JI REVDAT 4 13-SEP-23 3R9W 1 REMARK REVDAT 3 30-AUG-23 3R9W 1 AUTHOR JRNL REMARK SEQADV REVDAT 3 2 1 LINK REVDAT 2 06-JUL-11 3R9W 1 JRNL REVDAT 1 22-JUN-11 3R9W 0 JRNL AUTH C.TU,X.ZHOU,S.G.TARASOV,J.E.TROPEA,B.P.AUSTIN,D.S.WAUGH, JRNL AUTH 2 D.L.COURT,X.JI JRNL TITL THE ERA GTPASE RECOGNIZES THE GAUCACCUCC SEQUENCE AND BINDS JRNL TITL 2 HELIX 45 NEAR THE 3' END OF 16S RRNA. JRNL REF PROC.NATL.ACAD.SCI.USA V. 108 10156 2011 JRNL REFN ISSN 0027-8424 JRNL PMID 21646538 JRNL DOI 10.1073/PNAS.1017679108 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.TU,X.ZHOU,J.E.TROPEA,B.P.AUSTIN,D.S.WAUGH,L.D.COURT,X.JI REMARK 1 TITL STRUCTURE OF ERA IN COMPLEX WITH THE 3' END OF 16S RRNA: REMARK 1 TITL 2 IMPLICATIONS FOR RIBOSOME BIOGENESIS REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 106 14843 2009 REMARK 1 REFN ISSN 0027-8424 REMARK 1 PMID 19706445 REMARK 1 DOI 10.1073/PNAS.0904032106 REMARK 1 REFERENCE 2 REMARK 1 AUTH X.CHEN,L.D.COURT,X.JI REMARK 1 TITL CRYSTAL STRUCTURE OF ERA: A GTPASE-DEPENDENT CELL CYCLE REMARK 1 TITL 2 REGULATOR CONTAINING AN RNA BINDING MOTIF REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 96 8396 1999 REMARK 1 REFN ISSN 0027-8424 REMARK 1 PMID 10411886 REMARK 1 DOI 10.1073/PNAS.96.15.8396 REMARK 2 REMARK 2 RESOLUTION. 2.05 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.6.4_486 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.91 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.4 REMARK 3 NUMBER OF REFLECTIONS : 27524 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1404 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 25.9153 - 4.4101 0.99 2835 146 0.1434 0.1802 REMARK 3 2 4.4101 - 3.5032 1.00 2810 171 0.1480 0.1998 REMARK 3 3 3.5032 - 3.0611 1.00 2813 127 0.1929 0.2447 REMARK 3 4 3.0611 - 2.7816 1.00 2806 145 0.2279 0.3242 REMARK 3 5 2.7816 - 2.5824 1.00 2791 146 0.2505 0.3491 REMARK 3 6 2.5824 - 2.4303 0.99 2759 159 0.2715 0.3291 REMARK 3 7 2.4303 - 2.3087 0.95 2629 137 0.2998 0.3410 REMARK 3 8 2.3087 - 2.2082 0.85 2389 126 0.3294 0.3919 REMARK 3 9 2.2082 - 2.1232 0.84 2286 137 0.3981 0.4480 REMARK 3 10 2.1232 - 2.0500 0.71 2002 110 0.4729 0.5078 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.34 REMARK 3 B_SOL : 60.74 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.460 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 45.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 62.19 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 3351 REMARK 3 ANGLE : 1.167 4711 REMARK 3 CHIRALITY : 0.072 571 REMARK 3 PLANARITY : 0.005 467 REMARK 3 DIHEDRAL : 16.003 1418 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3R9W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-APR-11. REMARK 100 THE DEPOSITION ID IS D_1000064672. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27524 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.7 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.07800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 72.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.66500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.180 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3IEV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M CALCIUM ACETATE, 40% (V/V) MPD, REMARK 280 PH 7.2, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 44.47300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.80200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 44.47300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 42.80200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 14060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -122.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 -88.94600 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 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 C B1536 N1 - C2 - O2 ANGL. DEV. = -4.2 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 ASN A 13 8.07 82.07 REMARK 500 GLU A 51 -50.91 -138.99 REMARK 500 GLU A 208 -125.14 58.26 REMARK 500 LYS A 252 26.05 46.81 REMARK 500 TYR A 299 42.98 -90.15 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 MG A 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 17 OG REMARK 620 2 THR A 38 OG1 81.1 REMARK 620 3 GNP A 402 O1G 169.3 88.3 REMARK 620 4 GNP A 402 O2B 96.5 176.3 94.2 REMARK 620 5 HOH A 611 O 89.9 85.5 90.4 91.7 REMARK 620 6 HOH A 632 O 91.6 95.1 88.1 87.8 178.4 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 MG A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GNP A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 504 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1EGA RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ERA REMARK 900 RELATED ID: 3IEU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ERA IN COMPLEX WITH GDP REMARK 900 RELATED ID: 3IEV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ERA IN COMPLEX WITH MGGDPNP AND NUCLEOTIDES REMARK 900 1531-1542 OF 16S RIBOSOMAL RNA DBREF 3R9W A 1 301 UNP O67800 ERA_AQUAE 1 301 DBREF 3R9W B 1506 1539 PDB 3R9W 3R9W 1506 1539 SEQADV 3R9W HIS A -5 UNP O67800 EXPRESSION TAG SEQADV 3R9W HIS A -4 UNP O67800 EXPRESSION TAG SEQADV 3R9W HIS A -3 UNP O67800 EXPRESSION TAG SEQADV 3R9W HIS A -2 UNP O67800 EXPRESSION TAG SEQADV 3R9W HIS A -1 UNP O67800 EXPRESSION TAG SEQADV 3R9W HIS A 0 UNP O67800 EXPRESSION TAG SEQRES 1 A 307 HIS HIS HIS HIS HIS HIS MET LYS VAL GLY TYR VAL ALA SEQRES 2 A 307 ILE VAL GLY LYS PRO ASN VAL GLY LYS SER THR LEU LEU SEQRES 3 A 307 ASN ASN LEU LEU GLY THR LYS VAL SER ILE ILE SER PRO SEQRES 4 A 307 LYS ALA GLY THR THR ARG MET ARG VAL LEU GLY VAL LYS SEQRES 5 A 307 ASN ILE PRO ASN GLU ALA GLN ILE ILE PHE LEU ASP THR SEQRES 6 A 307 PRO GLY ILE TYR GLU PRO LYS LYS SER ASP VAL LEU GLY SEQRES 7 A 307 HIS SER MET VAL GLU ILE ALA LYS GLN SER LEU GLU GLU SEQRES 8 A 307 ALA ASP VAL ILE LEU PHE MET ILE ASP ALA THR GLU GLY SEQRES 9 A 307 TRP ARG PRO ARG ASP GLU GLU ILE TYR GLN ASN PHE ILE SEQRES 10 A 307 LYS PRO LEU ASN LYS PRO VAL ILE VAL VAL ILE ASN LYS SEQRES 11 A 307 ILE ASP LYS ILE GLY PRO ALA LYS ASN VAL LEU PRO LEU SEQRES 12 A 307 ILE ASP GLU ILE HIS LYS LYS HIS PRO GLU LEU THR GLU SEQRES 13 A 307 ILE VAL PRO ILE SER ALA LEU LYS GLY ALA ASN LEU ASP SEQRES 14 A 307 GLU LEU VAL LYS THR ILE LEU LYS TYR LEU PRO GLU GLY SEQRES 15 A 307 GLU PRO LEU PHE PRO GLU ASP MET ILE THR ASP LEU PRO SEQRES 16 A 307 LEU ARG LEU LEU ALA ALA GLU ILE VAL ARG GLU LYS ALA SEQRES 17 A 307 MET MET LEU THR ARG GLU GLU VAL PRO THR SER ILE ALA SEQRES 18 A 307 VAL LYS ILE ASN GLU ILE LYS PRO GLY ASP ALA ASN PRO SEQRES 19 A 307 ASN MET LEU VAL ILE LYS GLY GLU ILE ILE VAL ASP ARG SEQRES 20 A 307 GLU ASN LEU LYS PRO ILE ILE ILE GLY LYS LYS GLY GLN SEQRES 21 A 307 ARG LEU LYS GLU ILE GLY LYS ARG ALA ARG GLN GLU LEU SEQRES 22 A 307 GLU LEU ILE LEU GLY ARG PRO VAL TYR LEU GLU LEU TRP SEQRES 23 A 307 VAL LYS VAL VAL PRO ASP TRP ARG ARG ARG PRO GLU TYR SEQRES 24 A 307 VAL ARG LEU PHE GLY TYR ALA LEU SEQRES 1 B 34 C A A C C G U A G G G G A SEQRES 2 B 34 A C C U G C G G U U G G A SEQRES 3 B 34 U C A C C U C C HET MG A 401 1 HET GNP A 402 32 HET ACT A 502 4 HET ACT A 503 4 HET ACT A 505 4 HET ACT A 506 4 HET MRD A 507 8 HET MRD A 508 8 HET CA B 501 1 HET ACT B 504 4 HETNAM MG MAGNESIUM ION HETNAM GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER HETNAM ACT ACETATE ION HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL HETNAM CA CALCIUM ION FORMUL 3 MG MG 2+ FORMUL 4 GNP C10 H17 N6 O13 P3 FORMUL 5 ACT 5(C2 H3 O2 1-) FORMUL 9 MRD 2(C6 H14 O2) FORMUL 11 CA CA 2+ FORMUL 13 HOH *91(H2 O) HELIX 1 1 GLY A 15 GLY A 25 1 11 HELIX 2 2 ASP A 69 ALA A 86 1 18 HELIX 3 3 ARG A 100 ILE A 111 1 12 HELIX 4 4 LYS A 112 ASN A 115 5 4 HELIX 5 5 LYS A 124 ILE A 128 5 5 HELIX 6 6 PRO A 130 ASN A 133 5 4 HELIX 7 7 VAL A 134 HIS A 145 1 12 HELIX 8 8 ASN A 161 LEU A 173 1 13 HELIX 9 9 PRO A 189 LEU A 205 1 17 HELIX 10 10 GLU A 209 ILE A 214 1 6 HELIX 11 11 ASN A 243 GLY A 250 1 8 HELIX 12 12 GLY A 253 GLY A 272 1 20 HELIX 13 13 ASP A 286 ARG A 289 5 4 HELIX 14 14 ARG A 290 PHE A 297 1 8 SHEET 1 A 6 VAL A 42 ILE A 48 0 SHEET 2 A 6 ALA A 52 ASP A 58 -1 O ILE A 54 N LYS A 46 SHEET 3 A 6 LYS A 2 VAL A 9 1 N ILE A 8 O LEU A 57 SHEET 4 A 6 VAL A 88 ASP A 94 1 O LEU A 90 N ALA A 7 SHEET 5 A 6 VAL A 118 ASN A 123 1 O ILE A 119 N ILE A 89 SHEET 6 A 6 ILE A 151 PRO A 153 1 O VAL A 152 N VAL A 120 SHEET 1 B 3 ALA A 215 PRO A 223 0 SHEET 2 B 3 LEU A 231 VAL A 239 -1 O ILE A 238 N ALA A 215 SHEET 3 B 3 VAL A 275 VAL A 283 1 O GLU A 278 N ILE A 233 LINK OG SER A 17 MG MG A 401 1555 1555 2.22 LINK OG1 THR A 38 MG MG A 401 1555 1555 2.10 LINK MG MG A 401 O1G GNP A 402 1555 1555 2.11 LINK MG MG A 401 O2B GNP A 402 1555 1555 2.16 LINK MG MG A 401 O HOH A 611 1555 1555 2.18 LINK MG MG A 401 O HOH A 632 1555 1555 2.20 LINK CA CA B 501 O6 G B1523 1555 1555 2.75 SITE 1 AC1 5 SER A 17 THR A 38 GNP A 402 HOH A 611 SITE 2 AC1 5 HOH A 632 SITE 1 AC2 28 PRO A 12 ASN A 13 VAL A 14 GLY A 15 SITE 2 AC2 28 LYS A 16 SER A 17 THR A 18 ILE A 31 SITE 3 AC2 28 SER A 32 PRO A 33 GLY A 36 THR A 37 SITE 4 AC2 28 THR A 38 GLY A 61 ASN A 123 LYS A 124 SITE 5 AC2 28 ASP A 126 SER A 155 ALA A 156 LEU A 157 SITE 6 AC2 28 MG A 401 HOH A 606 HOH A 611 HOH A 617 SITE 7 AC2 28 HOH A 624 HOH A 625 HOH A 632 HOH A 671 SITE 1 AC3 3 LYS A 245 TRP A 280 C B1533 SITE 1 AC4 5 GLU A 208 C B1506 A B1507 G B1530 SITE 2 AC4 5 A B1531 SITE 1 AC5 1 ALA A 95 SITE 1 AC6 1 GLU A 64 SITE 1 AC7 1 ARG A 295 SITE 1 AC8 3 HIS A 142 THR A 149 G B1516 SITE 1 AC9 4 G B1511 U B1512 U B1522 G B1523 SITE 1 BC1 2 A B1531 U B1532 CRYST1 88.946 85.604 67.184 90.00 111.20 90.00 C 1 2 1 4 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 0.011243 0.000000 0.004361 0.00000 SCALE2 0.000000 0.011682 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015965 0.00000