PDB Short entry for 1C0A HEADER LIGASE/RNA 15-JUL-99 1C0A TITLE CRYSTAL STRUCTURE OF THE E. COLI ASPARTYL-TRNA SYNTHETASE : TRNAASP : TITLE 2 ASPARTYL-ADENYLATE COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: ASPARTYL TRNA; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: ASPARTYL TRNA SYNTHETASE; COMPND 7 CHAIN: A; COMPND 8 SYNONYM: ASPARTATE-TRNA LIGASE, ASPRS; COMPND 9 EC: 6.1.1.12; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PTRC99; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 10 ORGANISM_TAXID: 562; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PBR322 KEYWDS PROTEIN-RNA COMPLEX, LIGASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.EILER,A.-C.DOCK-BREGEON,L.MOULINIER,J.-C.THIERRY,D.MORAS REVDAT 6 07-FEB-24 1C0A 1 REMARK LINK REVDAT 5 24-FEB-09 1C0A 1 VERSN REVDAT 4 29-APR-03 1C0A 1 HETATM HETNAM HET FORMUL REVDAT 4 2 1 CONECT REVDAT 3 01-APR-03 1C0A 1 JRNL REVDAT 2 26-JUN-00 1C0A 3 HETATM HETNAM HET MODRES REVDAT 1 23-NOV-99 1C0A 0 JRNL AUTH S.EILER,A.DOCK-BREGEON,L.MOULINIER,J.C.THIERRY,D.MORAS JRNL TITL SYNTHESIS OF ASPARTYL-TRNA(ASP) IN ESCHERICHIA COLI--A JRNL TITL 2 SNAPSHOT OF THE SECOND STEP. JRNL REF EMBO J. V. 18 6532 1999 JRNL REFN ISSN 0261-4189 JRNL PMID 10562565 JRNL DOI 10.1093/EMBOJ/18.22.6532 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.4 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 12.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2763619.290 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 46618 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.600 REMARK 3 FREE R VALUE TEST SET COUNT : 3536 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.55 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.60 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 6856 REMARK 3 BIN R VALUE (WORKING SET) : 0.2480 REMARK 3 BIN FREE R VALUE : 0.3230 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 7.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 580 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.013 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4592 REMARK 3 NUCLEIC ACID ATOMS : 1655 REMARK 3 HETEROGEN ATOMS : 59 REMARK 3 SOLVENT ATOMS : 514 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.91000 REMARK 3 B22 (A**2) : -1.91000 REMARK 3 B33 (A**2) : 3.81000 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.28 REMARK 3 ESD FROM SIGMAA (A) : 0.23 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.35 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.34 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.011 REMARK 3 BOND ANGLES (DEGREES) : 1.600 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 27.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.510 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.180 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.960 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.020 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.860 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.38 REMARK 3 BSOL : 35.19 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PA REMARK 3 PARAMETER FILE 2 : DNA-RNA.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARA REMARK 3 PARAMETER FILE 4 : LIGAND.PARAM REMARK 3 PARAMETER FILE 5 : ION.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA-SE.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : LIGAND.TOP REMARK 3 TOPOLOGY FILE 5 : ION.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1C0A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-JUL-99. REMARK 100 THE DEPOSITION ID IS D_1000009345. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 120.0 REMARK 200 PH : 6.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LURE REMARK 200 BEAMLINE : D41A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.3675 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46618 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 12.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.05900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULFATE, GLYCEROL, BIS-TRIS REMARK 280 -PROPANE, PH 6.8, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 115.90500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 50.60000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 50.60000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 173.85750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 50.60000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 50.60000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 57.95250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 50.60000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.60000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 173.85750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 50.60000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.60000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 57.95250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 115.90500 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 G B 601 P G B 601 OP3 -0.087 REMARK 500 G B 645 O3' G7M B 646 P -0.076 REMARK 500 G7M B 646 O3' U B 647 P -0.125 REMARK 500 C B 648 O3' G B 649 P -0.218 REMARK 500 ASN A 398 C LYS A 399 N -0.165 REMARK 500 REMARK 500 REMARK: NULL 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 QUO B 634 C3' - O3' - P ANGL. DEV. = -18.1 DEGREES REMARK 500 U B 635 O3' - P - O5' ANGL. DEV. = 22.1 DEGREES REMARK 500 U B 635 O3' - P - OP2 ANGL. DEV. = -30.1 DEGREES REMARK 500 U B 635 O3' - P - OP1 ANGL. DEV. = 8.7 DEGREES REMARK 500 G7M B 646 C3' - O3' - P ANGL. DEV. = 10.5 DEGREES REMARK 500 C B 648 O5' - P - OP1 ANGL. DEV. = -6.6 DEGREES REMARK 500 C B 648 C3' - O3' - P ANGL. DEV. = 31.4 DEGREES REMARK 500 G B 649 O3' - P - OP2 ANGL. DEV. = -29.5 DEGREES REMARK 500 G B 649 O3' - P - OP1 ANGL. DEV. = 14.3 DEGREES REMARK 500 MET A 202 CG - SD - CE ANGL. DEV. = 9.8 DEGREES REMARK 500 ARG A 208 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 ASN A 398 CA - C - N ANGL. DEV. = 15.1 DEGREES REMARK 500 ASN A 398 O - C - N ANGL. DEV. = -16.3 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 LEU A 30 35.13 -93.24 REMARK 500 ALA A 54 -39.89 -33.99 REMARK 500 GLU A 80 -27.79 -36.53 REMARK 500 ASP A 106 -172.23 -62.41 REMARK 500 TYR A 124 50.57 -108.83 REMARK 500 THR A 166 -169.80 -119.79 REMARK 500 GLU A 171 161.01 82.44 REMARK 500 GLN A 211 144.18 -171.98 REMARK 500 LYS A 283 56.71 -145.32 REMARK 500 PHE A 304 99.57 -48.26 REMARK 500 LEU A 372 -162.19 -106.73 REMARK 500 ASP A 397 -161.78 -167.52 REMARK 500 ASP A 421 91.16 -69.38 REMARK 500 LYS A 424 151.85 -44.68 REMARK 500 HIS A 448 -69.07 -107.82 REMARK 500 ASN A 472 64.02 -100.46 REMARK 500 TYR A 523 68.77 -115.05 REMARK 500 GLU A 566 49.80 75.28 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AMP A 800 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AMO A 831 DBREF 1C0A B 601 676 GB ECOTRD1 1 77 DBREF 1C0A A 1 585 UNP P21889 SYD_ECOLI 1 585 SEQRES 1 B 77 G G A G C G G 4SU A G U U C SEQRES 2 B 77 A G H2U C G G H2U H2U A G A A U SEQRES 3 B 77 A C C U G C C U QUO U C A C SEQRES 4 B 77 G C A G G G G G7M U C G C G SEQRES 5 B 77 G G 5MU PSU C G A G U C C C G SEQRES 6 B 77 PSU C C G U U C C G C C A SEQRES 1 A 585 MET ARG THR GLU TYR CYS GLY GLN LEU ARG LEU SER HIS SEQRES 2 A 585 VAL GLY GLN GLN VAL THR LEU CYS GLY TRP VAL ASN ARG SEQRES 3 A 585 ARG ARG ASP LEU GLY SER LEU ILE PHE ILE ASP MET ARG SEQRES 4 A 585 ASP ARG GLU GLY ILE VAL GLN VAL PHE PHE ASP PRO ASP SEQRES 5 A 585 ARG ALA ASP ALA LEU LYS LEU ALA SER GLU LEU ARG ASN SEQRES 6 A 585 GLU PHE CYS ILE GLN VAL THR GLY THR VAL ARG ALA ARG SEQRES 7 A 585 ASP GLU LYS ASN ILE ASN ARG ASP MET ALA THR GLY GLU SEQRES 8 A 585 ILE GLU VAL LEU ALA SER SER LEU THR ILE ILE ASN ARG SEQRES 9 A 585 ALA ASP VAL LEU PRO LEU ASP SER ASN HIS VAL ASN THR SEQRES 10 A 585 GLU GLU ALA ARG LEU LYS TYR ARG TYR LEU ASP LEU ARG SEQRES 11 A 585 ARG PRO GLU MET ALA GLN ARG LEU LYS THR ARG ALA LYS SEQRES 12 A 585 ILE THR SER LEU VAL ARG ARG PHE MET ASP ASP HIS GLY SEQRES 13 A 585 PHE LEU ASP ILE GLU THR PRO MET LEU THR LYS ALA THR SEQRES 14 A 585 PRO GLU GLY ALA ARG ASP TYR LEU VAL PRO SER ARG VAL SEQRES 15 A 585 HIS LYS GLY LYS PHE TYR ALA LEU PRO GLN SER PRO GLN SEQRES 16 A 585 LEU PHE LYS GLN LEU LEU MET MET SER GLY PHE ASP ARG SEQRES 17 A 585 TYR TYR GLN ILE VAL LYS CYS PHE ARG ASP GLU ASP LEU SEQRES 18 A 585 ARG ALA ASP ARG GLN PRO GLU PHE THR GLN ILE ASP VAL SEQRES 19 A 585 GLU THR SER PHE MET THR ALA PRO GLN VAL ARG GLU VAL SEQRES 20 A 585 MET GLU ALA LEU VAL ARG HIS LEU TRP LEU GLU VAL LYS SEQRES 21 A 585 GLY VAL ASP LEU GLY ASP PHE PRO VAL MET THR PHE ALA SEQRES 22 A 585 GLU ALA GLU ARG ARG TYR GLY SER ASP LYS PRO ASP LEU SEQRES 23 A 585 ARG ASN PRO MET GLU LEU THR ASP VAL ALA ASP LEU LEU SEQRES 24 A 585 LYS SER VAL GLU PHE ALA VAL PHE ALA GLY PRO ALA ASN SEQRES 25 A 585 ASP PRO LYS GLY ARG VAL ALA ALA LEU ARG VAL PRO GLY SEQRES 26 A 585 GLY ALA SER LEU THR ARG LYS GLN ILE ASP GLU TYR GLY SEQRES 27 A 585 ASN PHE VAL LYS ILE TYR GLY ALA LYS GLY LEU ALA TYR SEQRES 28 A 585 ILE LYS VAL ASN GLU ARG ALA LYS GLY LEU GLU GLY ILE SEQRES 29 A 585 ASN SER PRO VAL ALA LYS PHE LEU ASN ALA GLU ILE ILE SEQRES 30 A 585 GLU ASP ILE LEU ASP ARG THR ALA ALA GLN ASP GLY ASP SEQRES 31 A 585 MET ILE PHE PHE GLY ALA ASP ASN LYS LYS ILE VAL ALA SEQRES 32 A 585 ASP ALA MET GLY ALA LEU ARG LEU LYS VAL GLY LYS ASP SEQRES 33 A 585 LEU GLY LEU THR ASP GLU SER LYS TRP ALA PRO LEU TRP SEQRES 34 A 585 VAL ILE ASP PHE PRO MET PHE GLU ASP ASP GLY GLU GLY SEQRES 35 A 585 GLY LEU THR ALA MET HIS HIS PRO PHE THR SER PRO LYS SEQRES 36 A 585 ASP MET THR ALA ALA GLU LEU LYS ALA ALA PRO GLU ASN SEQRES 37 A 585 ALA VAL ALA ASN ALA TYR ASP MET VAL ILE ASN GLY TYR SEQRES 38 A 585 GLU VAL GLY GLY GLY SER VAL ARG ILE HIS ASN GLY ASP SEQRES 39 A 585 MET GLN GLN THR VAL PHE GLY ILE LEU GLY ILE ASN GLU SEQRES 40 A 585 GLU GLU GLN ARG GLU LYS PHE GLY PHE LEU LEU ASP ALA SEQRES 41 A 585 LEU LYS TYR GLY THR PRO PRO HIS ALA GLY LEU ALA PHE SEQRES 42 A 585 GLY LEU ASP ARG LEU THR MET LEU LEU THR GLY THR ASP SEQRES 43 A 585 ASN ILE ARG ASP VAL ILE ALA PHE PRO LYS THR THR ALA SEQRES 44 A 585 ALA ALA CYS LEU MET THR GLU ALA PRO SER PHE ALA ASN SEQRES 45 A 585 PRO THR ALA LEU ALA GLU LEU SER ILE GLN VAL VAL LYS MODRES 1C0A 4SU B 608 U 4-THIOURIDINE-5'-MONOPHOSPHATE MODRES 1C0A H2U B 616 U 5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE MODRES 1C0A H2U B 620 U 5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE MODRES 1C0A H2U B 620A U 5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE MODRES 1C0A QUO B 634 G MODRES 1C0A G7M B 646 G N7-METHYL-GUANOSINE-5'-MONOPHOSPHATE MODRES 1C0A 5MU B 654 U 5-METHYLURIDINE 5'-MONOPHOSPHATE MODRES 1C0A PSU B 655 U PSEUDOURIDINE-5'-MONOPHOSPHATE MODRES 1C0A PSU B 665 U PSEUDOURIDINE-5'-MONOPHOSPHATE HET 4SU B 608 20 HET H2U B 616 20 HET H2U B 620 20 HET H2U B 620A 20 HET QUO B 634 32 HET G7M B 646 24 HET 5MU B 654 21 HET PSU B 655 20 HET PSU B 665 20 HET SO4 B 701 5 HET AMP A 800 23 HET AMO A 831 31 HETNAM 4SU 4-THIOURIDINE-5'-MONOPHOSPHATE HETNAM H2U 5,6-DIHYDROURIDINE-5'-MONOPHOSPHATE HETNAM QUO 2-AMINO-7-DEAZA-(2'',3''-DIHYDROXY-CYCLOPENTYLAMINO)- HETNAM 2 QUO GUANOSINE-5'-MONOPHOSPHATE HETNAM G7M N7-METHYL-GUANOSINE-5'-MONOPHOSPHATE HETNAM 5MU 5-METHYLURIDINE 5'-MONOPHOSPHATE HETNAM PSU PSEUDOURIDINE-5'-MONOPHOSPHATE HETNAM SO4 SULFATE ION HETNAM AMP ADENOSINE MONOPHOSPHATE HETNAM AMO ASPARTYL-ADENOSINE-5'-MONOPHOSPHATE FORMUL 1 4SU C9 H13 N2 O8 P S FORMUL 1 H2U 3(C9 H15 N2 O9 P) FORMUL 1 QUO C17 H26 N5 O10 P FORMUL 1 G7M C11 H17 N5 O8 P 1+ FORMUL 1 5MU C10 H15 N2 O9 P FORMUL 1 PSU 2(C9 H13 N2 O9 P) FORMUL 3 SO4 O4 S 2- FORMUL 4 AMP C10 H14 N5 O7 P FORMUL 5 AMO C14 H19 N6 O10 P FORMUL 6 HOH *514(H2 O) HELIX 1 1 TYR A 5 LEU A 9 5 5 HELIX 2 2 ARG A 10 VAL A 14 5 5 HELIX 3 3 ASP A 50 ASP A 52 5 3 HELIX 4 4 ARG A 53 SER A 61 1 9 HELIX 5 5 THR A 117 TYR A 124 1 8 HELIX 6 6 TYR A 124 LEU A 129 1 6 HELIX 7 7 ARG A 131 HIS A 155 1 25 HELIX 8 8 PRO A 194 SER A 204 1 11 HELIX 9 9 THR A 240 GLY A 261 1 22 HELIX 10 10 PHE A 272 GLY A 280 1 9 HELIX 11 11 VAL A 295 LYS A 300 1 6 HELIX 12 12 PHE A 304 ASP A 313 1 10 HELIX 13 13 GLY A 325 LEU A 329 5 5 HELIX 14 14 THR A 330 TYR A 344 1 15 HELIX 15 15 GLU A 356 GLY A 360 5 5 HELIX 16 16 LYS A 359 GLU A 362 5 4 HELIX 17 17 VAL A 368 LEU A 372 5 5 HELIX 18 18 ASN A 373 THR A 384 1 12 HELIX 19 19 LYS A 399 LEU A 417 1 19 HELIX 20 20 THR A 458 ALA A 465 1 8 HELIX 21 21 ASN A 492 LEU A 503 1 12 HELIX 22 22 ASN A 506 GLY A 515 1 10 HELIX 23 23 PHE A 514 LEU A 521 1 8 HELIX 24 24 LEU A 535 GLY A 544 1 10 HELIX 25 25 ASN A 547 ILE A 552 5 6 HELIX 26 26 ASN A 572 LEU A 579 1 8 SHEET 1 A 6 GLN A 17 ASP A 29 0 SHEET 2 A 6 ILE A 34 ASP A 40 -1 O PHE A 35 N ARG A 28 SHEET 3 A 6 GLN A 17 ASP A 29 -1 O TRP A 23 N ARG A 39 SHEET 4 A 6 CYS A 68 ALA A 77 -1 N ILE A 69 O GLY A 22 SHEET 5 A 6 ILE A 92 ASN A 103 -1 O GLU A 93 N ARG A 76 SHEET 6 A 6 GLY A 43 PHE A 49 1 O GLN A 46 N VAL A 94 SHEET 1 B 8 LEU A 158 ASP A 159 0 SHEET 2 B 8 ARG A 208 PHE A 216 1 O ARG A 208 N LEU A 158 SHEET 3 B 8 GLU A 228 SER A 237 -1 O PHE A 229 N CYS A 215 SHEET 4 B 8 HIS A 528 GLY A 534 -1 O ALA A 529 N THR A 236 SHEET 5 B 8 TYR A 481 VAL A 488 -1 O VAL A 483 N GLY A 534 SHEET 6 B 8 ALA A 473 ILE A 478 -1 N TYR A 474 O GLY A 486 SHEET 7 B 8 PRO A 427 ILE A 431 -1 O LEU A 428 N VAL A 477 SHEET 8 B 8 VAL A 269 THR A 271 1 O MET A 270 N ILE A 431 SHEET 1 C 2 LEU A 177 PRO A 179 0 SHEET 2 C 2 PHE A 187 ALA A 189 -1 O TYR A 188 N VAL A 178 SHEET 1 D 5 LEU A 292 ASP A 294 0 SHEET 2 D 5 GLY A 316 VAL A 323 -1 N ALA A 320 O THR A 293 SHEET 3 D 5 MET A 391 ASN A 398 -1 O MET A 391 N VAL A 323 SHEET 4 D 5 TYR A 351 VAL A 354 -1 N ILE A 352 O ILE A 392 SHEET 5 D 5 ILE A 364 ASN A 365 -1 O ASN A 365 N LYS A 353 SHEET 1 E 2 PHE A 436 ASP A 438 0 SHEET 2 E 2 LEU A 444 ALA A 446 -1 N THR A 445 O GLU A 437 LINK O3' G B 607 P 4SU B 608 1555 1555 1.59 LINK O3' 4SU B 608 P A B 609 1555 1555 1.60 LINK O3' G B 615 P H2U B 616 1555 1555 1.60 LINK O3' H2U B 616 P C B 617 1555 1555 1.60 LINK O3' G B 619 P H2U B 620 1555 1555 1.60 LINK O3' H2U B 620 P H2U B 620A 1555 1555 1.61 LINK O3' H2U B 620A P A B 621 1555 1555 1.60 LINK O3' U B 633 P QUO B 634 1555 1555 1.60 LINK O3' QUO B 634 OP2 U B 635 1555 1555 1.88 LINK O3' QUO B 634 P U B 635 1555 1555 1.58 LINK O3' G B 645 P G7M B 646 1555 1555 1.53 LINK O3' G7M B 646 P U B 647 1555 1555 1.48 LINK O3' G B 653 P 5MU B 654 1555 1555 1.62 LINK O3' 5MU B 654 P PSU B 655 1555 1555 1.61 LINK O3' PSU B 655 P C B 656 1555 1555 1.62 LINK O3' G B 664 P PSU B 665 1555 1555 1.61 LINK O3' PSU B 665 P C B 666 1555 1555 1.60 CISPEP 1 ALA A 567 PRO A 568 0 0.19 SITE 1 AC1 6 G B 606 PSU B 665 C B 666 C B 667 SITE 2 AC1 6 HOH B1245 HOH B1502 SITE 1 AC2 9 PHE A 304 VAL A 306 LYS A 347 GLY A 348 SITE 2 AC2 9 LEU A 349 ALA A 350 ALA A 396 HOH A1320 SITE 3 AC2 9 HOH A1480 SITE 1 AC3 27 SER A 193 GLN A 195 LYS A 198 ARG A 217 SITE 2 AC3 27 ASP A 224 ARG A 225 GLN A 226 PHE A 229 SITE 3 AC3 27 GLN A 231 HIS A 448 HIS A 449 GLU A 482 SITE 4 AC3 27 VAL A 483 GLY A 484 GLY A 485 GLY A 486 SITE 5 AC3 27 ARG A 489 GLY A 530 LEU A 531 ALA A 532 SITE 6 AC3 27 GLY A 534 ARG A 537 ILE A 548 HOH A1003 SITE 7 AC3 27 HOH A1131 HOH A1133 A B 676 CRYST1 101.200 101.200 231.810 90.00 90.00 90.00 P 43 21 2 8 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 0.009881 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009881 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004314 0.00000