HEADER HYDROLASE/TRANSFERASE/RNA 26-MAR-11 3R9X TITLE CRYSTAL STRUCTURE OF ERA IN COMPLEX WITH MGGDPNP, NUCLEOTIDES 1506- TITLE 2 1542 OF 16S RIBOSOMAL RNA, AND KSGA 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: RIBOSOMAL RNA SMALL SUBUNIT METHYLTRANSFERASE A; COMPND 7 CHAIN: B; COMPND 8 SYNONYM: 16S RRNA (ADENINE(1518)-N(6)/ADENINE(1519)-N(6))- COMPND 9 DIMETHYLTRANSFERASE, 16S RRNA DIMETHYLADENOSINE TRANSFERASE, 16S RRNA COMPND 10 DIMETHYLASE, S-ADENOSYLMETHIONINE-6-N', N'-ADENOSYL(RRNA) COMPND 11 DIMETHYLTRANSFERASE; COMPND 12 EC: 2.1.1.182; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: RNA301; COMPND 16 CHAIN: C; COMPND 17 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 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS; SOURCE 12 ORGANISM_TAXID: 63363; SOURCE 13 GENE: AQ_1816, KSGA, RSMA; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PDONR201; SOURCE 19 MOL_ID: 3; SOURCE 20 SYNTHETIC: YES; SOURCE 21 OTHER_DETAILS: THIS SEQUENCE OCCURS NATURALLY IN AQUIFEX AEOLICUS SOURCE 22 EXCEPT FOR U1506 THAT IS REPLACED WITH C1506. KEYWDS GTPASE, KH DOMAIN, RIBOSOME, BIOGENESIS, GTP, 16S RIBOSOMAL RNA, GTP KEYWDS 2 HYDROLYSIS, HYDROLASE-TRANSFERASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR C.TU,X.JI REVDAT 4 13-SEP-23 3R9X 1 REMARK REVDAT 3 30-AUG-23 3R9X 1 AUTHOR JRNL REMARK SEQADV REVDAT 3 2 1 LINK REVDAT 2 06-JUL-11 3R9X 1 JRNL REVDAT 1 22-JUN-11 3R9X 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 PUBL 10411886 REMARK 1 REFN ISSN 0027-8424 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.69 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.090 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.4 REMARK 3 NUMBER OF REFLECTIONS : 22561 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.320 REMARK 3 FREE R VALUE TEST SET COUNT : 975 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 28.6874 - 5.3462 1.00 3306 149 0.1503 0.1694 REMARK 3 2 5.3462 - 4.2479 1.00 3231 146 0.1338 0.2006 REMARK 3 3 4.2479 - 3.7122 0.99 3169 143 0.1562 0.2094 REMARK 3 4 3.7122 - 3.3734 0.98 3167 145 0.1766 0.2711 REMARK 3 5 3.3734 - 3.1319 0.97 3097 139 0.2004 0.2767 REMARK 3 6 3.1319 - 2.9474 0.93 2970 136 0.2193 0.2995 REMARK 3 7 2.9474 - 2.8000 0.83 2646 117 0.2655 0.3085 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 : 0.28 REMARK 3 B_SOL : 44.23 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.370 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 56.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 75.84 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.96560 REMARK 3 B22 (A**2) : -8.16050 REMARK 3 B33 (A**2) : -0.72290 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -7.40920 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 : 0.007 5293 REMARK 3 ANGLE : 1.240 7337 REMARK 3 CHIRALITY : 0.074 873 REMARK 3 PLANARITY : 0.005 796 REMARK 3 DIHEDRAL : 22.350 2229 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 3R9X 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_1000064673. 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 : 5.0 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 : 23217 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 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 (%) : 98.4 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.09700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.61400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.690 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, 3FTF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE, 20% (V/V) MPD, PH REMARK 280 5.0, 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 97.75100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.04700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 97.75100 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 34.04700 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -59.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 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 465 MET B 1 REMARK 465 VAL B 2 REMARK 465 ARG B 3 REMARK 465 LEU B 4 REMARK 465 LYS B 5 REMARK 465 LYS B 6 REMARK 465 SER B 7 REMARK 465 PHE B 8 REMARK 465 GLY B 9 REMARK 465 GLN B 10 REMARK 465 HIS B 11 REMARK 465 LEU B 12 REMARK 465 GLU B 248 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 102 NH2 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 G C1515 C3' - O3' - P ANGL. DEV. = 8.3 DEGREES REMARK 500 G C1530 C3' - O3' - P ANGL. DEV. = 10.0 DEGREES REMARK 500 C C1536 N1 - C1' - C2' ANGL. DEV. = -11.3 DEGREES REMARK 500 C C1536 O4' - C1' - N1 ANGL. DEV. = 4.8 DEGREES REMARK 500 C C1536 C3' - O3' - P ANGL. DEV. = -8.1 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 MET A 1 98.03 30.22 REMARK 500 THR A 26 133.98 -170.77 REMARK 500 ARG A 41 101.83 -35.93 REMARK 500 PRO A 49 112.68 -37.32 REMARK 500 GLU A 51 -36.29 -147.98 REMARK 500 PRO A 130 150.69 -46.88 REMARK 500 LEU A 148 80.33 -66.94 REMARK 500 LYS A 171 -19.54 -48.80 REMARK 500 PRO A 178 150.10 -45.33 REMARK 500 GLU A 208 -130.60 56.39 REMARK 500 ASN A 227 79.71 154.91 REMARK 500 PRO A 228 0.64 -59.09 REMARK 500 TYR A 299 39.91 -97.74 REMARK 500 ASN B 27 64.69 26.49 REMARK 500 GLU B 30 -75.07 -36.15 REMARK 500 THR B 41 41.62 -82.64 REMARK 500 LEU B 53 -150.08 -63.74 REMARK 500 LYS B 54 5.20 -170.30 REMARK 500 LYS B 55 143.67 167.82 REMARK 500 SER B 71 -9.40 -58.24 REMARK 500 SER B 85 36.36 -76.71 REMARK 500 LYS B 86 -26.60 -156.44 REMARK 500 LEU B 92 28.80 -79.64 REMARK 500 TYR B 104 -56.38 -24.38 REMARK 500 LEU B 123 133.67 -175.61 REMARK 500 ASP B 141 151.95 132.71 REMARK 500 PHE B 185 118.28 -163.38 REMARK 500 ASP B 189 85.80 79.76 REMARK 500 ASN B 203 63.47 65.01 REMARK 500 SER B 246 -80.12 -76.63 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 77.9 REMARK 620 3 GNP A 402 O2B 95.3 147.5 REMARK 620 4 GNP A 402 O1G 161.0 83.7 97.6 REMARK 620 5 HOH A 603 O 85.8 70.2 77.6 83.6 REMARK 620 6 HOH A 616 O 88.5 105.9 105.7 101.2 173.7 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 MRD A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 502 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 REMARK 900 RELATED ID: 3R9W RELATED DB: PDB DBREF 3R9X A 1 301 UNP O67800 ERA_AQUAE 1 301 DBREF 3R9X B 1 248 UNP O67680 RSMA_AQUAE 1 248 DBREF 3R9X C 1506 1540 PDB 3R9X 3R9X 1506 1540 SEQADV 3R9X HIS A -5 UNP O67800 EXPRESSION TAG SEQADV 3R9X HIS A -4 UNP O67800 EXPRESSION TAG SEQADV 3R9X HIS A -3 UNP O67800 EXPRESSION TAG SEQADV 3R9X HIS A -2 UNP O67800 EXPRESSION TAG SEQADV 3R9X HIS A -1 UNP O67800 EXPRESSION TAG SEQADV 3R9X 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 248 MET VAL ARG LEU LYS LYS SER PHE GLY GLN HIS LEU LEU SEQRES 2 B 248 VAL SER GLU GLY VAL LEU LYS LYS ILE ALA GLU GLU LEU SEQRES 3 B 248 ASN ILE GLU GLU GLY ASN THR VAL VAL GLU VAL GLY GLY SEQRES 4 B 248 GLY THR GLY ASN LEU THR LYS VAL LEU LEU GLN HIS PRO SEQRES 5 B 248 LEU LYS LYS LEU TYR VAL ILE GLU LEU ASP ARG GLU MET SEQRES 6 B 248 VAL GLU ASN LEU LYS SER ILE GLY ASP GLU ARG LEU GLU SEQRES 7 B 248 VAL ILE ASN GLU ASP ALA SER LYS PHE PRO PHE CYS SER SEQRES 8 B 248 LEU GLY LYS GLU LEU LYS VAL VAL GLY ASN LEU PRO TYR SEQRES 9 B 248 ASN VAL ALA SER LEU ILE ILE GLU ASN THR VAL TYR ASN SEQRES 10 B 248 LYS ASP CYS VAL PRO LEU ALA VAL PHE MET VAL GLN LYS SEQRES 11 B 248 GLU VAL ALA GLU LYS LEU GLN GLY LYS LYS ASP THR GLY SEQRES 12 B 248 TRP LEU SER VAL PHE VAL ARG THR PHE TYR ASP VAL ASN SEQRES 13 B 248 TYR VAL MET THR VAL PRO PRO ARG PHE PHE VAL PRO PRO SEQRES 14 B 248 PRO LYS VAL GLN SER ALA VAL ILE LYS LEU VAL LYS ASN SEQRES 15 B 248 GLU LYS PHE PRO VAL LYS ASP LEU LYS ASN TYR LYS LYS SEQRES 16 B 248 PHE LEU THR LYS ILE PHE GLN ASN ARG ARG LYS VAL LEU SEQRES 17 B 248 ARG LYS LYS ILE PRO GLU GLU LEU LEU LYS GLU ALA GLY SEQRES 18 B 248 ILE ASN PRO ASP ALA ARG VAL GLU GLN LEU SER LEU GLU SEQRES 19 B 248 ASP PHE PHE LYS LEU TYR ARG LEU ILE GLU ASP SER GLY SEQRES 20 B 248 GLU SEQRES 1 C 35 C A A C C G U A G G G G A SEQRES 2 C 35 A C C U G C G G U U G G A SEQRES 3 C 35 U C A C C U C C U HET MG A 401 1 HET GNP A 402 32 HET MRD A 503 8 HET MRD A 504 8 HET ACT B 501 4 HET ACT B 502 4 HETNAM MG MAGNESIUM ION HETNAM GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL HETNAM ACT ACETATE ION FORMUL 4 MG MG 2+ FORMUL 5 GNP C10 H17 N6 O13 P3 FORMUL 6 MRD 2(C6 H14 O2) FORMUL 8 ACT 2(C2 H3 O2 1-) FORMUL 10 HOH *83(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 LYS A 171 1 11 HELIX 9 9 PRO A 189 LEU A 205 1 17 HELIX 10 10 VAL A 210 ILE A 214 5 5 HELIX 11 11 ARG A 241 ASN A 243 5 3 HELIX 12 12 LEU A 244 GLY A 250 1 7 HELIX 13 13 GLY A 253 GLY A 272 1 20 HELIX 14 14 ASP A 286 ARG A 289 5 4 HELIX 15 15 ARG A 290 PHE A 297 1 8 HELIX 16 16 SER B 15 LEU B 26 1 12 HELIX 17 17 GLY B 42 HIS B 51 1 10 HELIX 18 18 GLU B 64 LEU B 69 1 6 HELIX 19 19 LYS B 70 ILE B 72 5 3 HELIX 20 20 PRO B 88 LEU B 92 5 5 HELIX 21 21 PRO B 103 ASN B 105 5 3 HELIX 22 22 VAL B 106 ASN B 117 1 12 HELIX 23 23 LYS B 130 GLY B 138 1 9 HELIX 24 24 GLY B 143 PHE B 152 1 10 HELIX 25 25 PRO B 162 PHE B 166 5 5 HELIX 26 26 ASP B 189 GLN B 202 1 14 HELIX 27 27 VAL B 207 LYS B 211 5 5 HELIX 28 28 PRO B 213 ALA B 220 1 8 HELIX 29 29 ARG B 227 LEU B 231 5 5 HELIX 30 30 SER B 232 GLY B 247 1 16 SHEET 1 A 6 VAL A 42 ILE A 48 0 SHEET 2 A 6 ALA A 52 ASP A 58 -1 O ASP A 58 N VAL A 42 SHEET 3 A 6 LYS A 2 VAL A 9 1 N VAL A 6 O ILE A 55 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 ASN A 123 N ILE A 93 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 GLY A 224 0 SHEET 2 B 3 ASN A 227 VAL A 239 -1 O LYS A 234 N ASN A 219 SHEET 3 B 3 VAL A 275 VAL A 283 1 O GLU A 278 N ILE A 233 SHEET 1 C 7 LEU B 77 VAL B 79 0 SHEET 2 C 7 LEU B 56 ILE B 59 1 N VAL B 58 O GLU B 78 SHEET 3 C 7 VAL B 34 VAL B 37 1 N GLU B 36 O TYR B 57 SHEET 4 C 7 LYS B 97 ASN B 101 1 O LYS B 97 N VAL B 35 SHEET 5 C 7 LEU B 123 GLN B 129 1 O VAL B 125 N VAL B 98 SHEET 6 C 7 SER B 174 LYS B 181 -1 O LEU B 179 N ALA B 124 SHEET 7 C 7 TYR B 153 VAL B 161 -1 N VAL B 161 O SER B 174 SSBOND 1 CYS B 90 CYS B 120 1555 1555 2.04 LINK OG SER A 17 MG MG A 401 1555 1555 2.28 LINK OG1 THR A 38 MG MG A 401 1555 1555 2.20 LINK MG MG A 401 O2B GNP A 402 1555 1555 2.14 LINK MG MG A 401 O1G GNP A 402 1555 1555 2.20 LINK MG MG A 401 O HOH A 603 1555 1555 2.29 LINK MG MG A 401 O HOH A 616 1555 1555 2.20 CISPEP 1 GLY B 40 THR B 41 0 0.79 CISPEP 2 VAL B 167 PRO B 168 0 2.99 SITE 1 AC1 5 SER A 17 THR A 38 GNP A 402 HOH A 603 SITE 2 AC1 5 HOH A 616 SITE 1 AC2 24 ASN A 13 VAL A 14 GLY A 15 LYS A 16 SITE 2 AC2 24 SER A 17 THR A 18 SER A 32 PRO A 33 SITE 3 AC2 24 GLY A 36 THR A 37 THR A 38 GLY A 61 SITE 4 AC2 24 ASN A 123 LYS A 124 ASP A 126 LYS A 127 SITE 5 AC2 24 SER A 155 ALA A 156 LEU A 157 MG A 401 SITE 6 AC2 24 HOH A 601 HOH A 603 HOH A 616 HOH A 645 SITE 1 AC3 7 PRO A 117 VAL A 118 GLU A 147 THR A 149 SITE 2 AC3 7 GLU A 150 TYR A 172 HOH A 677 SITE 1 AC4 5 TYR A 63 GLU A 64 GLU A 105 ASN A 109 SITE 2 AC4 5 PHE A 110 SITE 1 AC5 1 THR B 160 SITE 1 AC6 5 LYS B 130 GLU B 134 GLN B 137 TYR B 157 SITE 2 AC6 5 HOH B 673 CRYST1 195.502 68.094 73.587 90.00 100.62 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 0.005115 0.000000 0.000959 0.00000 SCALE2 0.000000 0.014686 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013826 0.00000