HEADER TRANSCRIPTION REGULATOR 08-MAR-02 1L5Y TITLE CRYSTAL STRUCTURE OF MG2+ / BEF3-BOUND RECEIVER DOMAIN OF TITLE 2 SINORHIZOBIUM MELILOTI DCTD COMPND MOL_ID: 1; COMPND 2 MOLECULE: C4-DICARBOXYLATE TRANSPORT TRANSCRIPTIONAL REGULATORY COMPND 3 PROTEIN DCTD; COMPND 4 CHAIN: A, B; COMPND 5 FRAGMENT: RECEIVER DOMAIN, RESIDUES 2-143; COMPND 6 SYNONYM: DCTDNL; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SINORHIZOBIUM MELILOTI; SOURCE 3 ORGANISM_TAXID: 382; SOURCE 4 GENE: DCTD; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21/DE3/PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PT143E121K KEYWDS BERYLLOFLUORIDE BOUND TWO COMPONENT RECEIVER DOMAIN, TRANSCRIPTION KEYWDS 2 REGULATOR EXPDTA X-RAY DIFFRACTION AUTHOR S.PARK,M.MEYER,A.D.JONES,H.P.YENNAWAR,N.H.YENNAWAR,B.T.NIXON REVDAT 7 16-AUG-23 1L5Y 1 REMARK REVDAT 6 27-OCT-21 1L5Y 1 REMARK SEQADV LINK REVDAT 5 25-OCT-17 1L5Y 1 REMARK REVDAT 4 13-JUL-11 1L5Y 1 VERSN REVDAT 3 24-FEB-09 1L5Y 1 VERSN REVDAT 2 11-DEC-02 1L5Y 1 JRNL REVDAT 1 23-OCT-02 1L5Y 0 JRNL AUTH S.PARK,M.MEYER,A.D.JONES,H.P.YENNAWAR,N.H.YENNAWAR,B.T.NIXON JRNL TITL TWO-COMPONENT SIGNALING IN THE AAA + ATPASE DCTD: BINDING JRNL TITL 2 MG2+ AND BEF3- SELECTS BETWEEN ALTERNATE DIMERIC STATES OF JRNL TITL 3 THE RECEIVER DOMAIN JRNL REF FASEB J. V. 16 1964 2002 JRNL REFN ISSN 0892-6638 JRNL PMID 12368235 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.G.MEYER,S.PARK,L.ZERINGUE,M.STALEY,M.MCKINSTRY, REMARK 1 AUTH 2 R.I.KAUFMAN,H.ZHANG,D.YAN,N.YENNAWAR,H.YENNAWAR,G.K.FARBER, REMARK 1 AUTH 3 B.T.NIXON REMARK 1 TITL A DIMERIC TWO-COMPONENT RECEIVER DOMAIN INHIBITS THE REMARK 1 TITL 2 SIGMA54-DEPENDENT ATPASE IN DCTD REMARK 1 REF FASEB J. V. 15 1326 2001 REMARK 1 REFN ISSN 0892-6638 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.87 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 259666.550 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 18672 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) : 0.184 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1840 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.23 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2754 REMARK 3 BIN R VALUE (WORKING SET) : 0.2040 REMARK 3 BIN FREE R VALUE : 0.2680 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 310 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.015 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2220 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 75 REMARK 3 SOLVENT ATOMS : 224 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.71000 REMARK 3 B22 (A**2) : -2.60000 REMARK 3 B33 (A**2) : 0.88000 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) : 0.20 REMARK 3 ESD FROM SIGMAA (A) : 0.14 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) : 0.26 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.20 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.014 REMARK 3 BOND ANGLES (DEGREES) : 1.700 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.050 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) : 1.510 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.020 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.670 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.580 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.42 REMARK 3 BSOL : 58.54 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_REP1.PARAM REMARK 3 PARAMETER FILE 2 : WATER.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : CRY.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1L5Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-MAR-02. REMARK 100 THE DEPOSITION ID IS D_1000015676. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-SEP-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MSC BLUE CONFOCAL OPTICAL SYSTEM REMARK 200 OPTICS : MSC BLUE CONFOCAL OPTICAL SYSTEM REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK, CRYSTALCLEAR REMARK 200 (MSC/RIGAKU) REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18672 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 43.240 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.9 REMARK 200 DATA REDUNDANCY : 3.740 REMARK 200 R MERGE (I) : 0.10500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 4.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.9 REMARK 200 DATA REDUNDANCY IN SHELL : 1.96 REMARK 200 R MERGE FOR SHELL (I) : 0.23000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1QKK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, LITHIUM SULFATE, HEPES, REMARK 280 BERYLLIUM CHLORIDE, SODIUM FLUORIDE, MAGNESIUM CHLORIDE, PH 7.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 26.00250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 38.92650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.41850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 38.92650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.00250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.41850 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 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 2 CHAIN(S). IN THIS ENTRY CHAIN A AND REMARK 300 B FORM THE DIMER THAT IS MOST LIKELY TO BE BIOLOGICALLY REMARK 300 RELEVANT, BASED ON ITS USE OF THE SIGNALING SURFACE AS REMARK 300 A DIMER INTERFACE AND UPON STRONG SIMILARITY TO FIXJ. REMARK 300 HOWEVER, OTHER DIMER FORMS ARE PRESENT IN THE CRYSTAL REMARK 300 LATTICE. 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: 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 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 SER A 2 REMARK 465 ALA A 3 REMARK 465 ALA A 4 REMARK 465 ALA A 148 REMARK 465 LEU A 149 REMARK 465 GLU A 150 REMARK 465 HIS A 151 REMARK 465 HIS A 152 REMARK 465 HIS A 153 REMARK 465 HIS A 154 REMARK 465 HIS A 155 REMARK 465 HIS A 156 REMARK 465 SER B 202 REMARK 465 HIS B 354 REMARK 465 HIS B 355 REMARK 465 HIS B 356 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 137 CG CD OE1 OE2 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 ASP A 74 103.63 -161.81 REMARK 500 ASP B 274 99.40 -164.47 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 701 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 12 OD1 REMARK 620 2 ASP A 55 OD2 86.0 REMARK 620 3 ARG A 57 O 95.7 94.6 REMARK 620 4 BEF A 660 F1 174.1 93.1 90.2 REMARK 620 5 HOH A 709 O 86.1 86.4 178.0 88.1 REMARK 620 6 HOH A 710 O 88.2 173.4 89.1 92.3 90.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 BEF A 660 BE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 55 OD1 REMARK 620 2 BEF A 660 F1 117.1 REMARK 620 3 BEF A 660 F2 112.3 109.0 REMARK 620 4 BEF A 660 F3 97.3 108.8 111.8 REMARK 620 5 MG A 701 MG 81.6 35.9 123.1 121.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 702 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 212 OD1 REMARK 620 2 ASP B 255 OD2 88.3 REMARK 620 3 ARG B 257 O 93.3 86.9 REMARK 620 4 ARG B 257 O 93.6 88.5 1.6 REMARK 620 5 BEF B 661 F1 166.7 79.0 90.3 90.3 REMARK 620 6 HOH B 743 O 87.6 87.5 174.3 175.8 87.6 REMARK 620 7 HOH B 744 O 98.3 172.2 88.6 87.0 94.6 96.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 BEF B 661 BE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 255 OD1 REMARK 620 2 BEF B 661 F1 117.7 REMARK 620 3 BEF B 661 F2 107.8 108.1 REMARK 620 4 BEF B 661 F3 102.8 110.6 109.5 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 MG A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 706 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 707 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BEF A 660 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BEF B 661 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BF2 A 662 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BF2 A 663 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BF2 A 664 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BF2 A 665 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BF2 B 666 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BF2 A 667 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BF2 B 668 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BF2 A 669 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BF2 A 670 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BF2 A 671 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BEF B 672 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BF4 A 673 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 674 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1QKK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE RECEIVER DOMAIN AND LINKER REGION OF DCTD REMARK 900 FROM SINORHIZOBIUM MELILOTI REMARK 900 RELATED ID: 1L5Z RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE E121K SUBSTITUTION OF THE RECEIVER DOMAIN REMARK 900 OF SINORHIZOBIUM MELILOTI DCTD DBREF 1L5Y A 2 143 UNP P13632 DCTD_RHIME 2 143 DBREF 1L5Y B 202 343 UNP P13632 DCTD_RHIME 2 143 SEQADV 1L5Y LYS A 121 UNP P13632 GLU 121 ENGINEERED MUTATION SEQADV 1L5Y LYS A 144 UNP P13632 EXPRESSION TAG SEQADV 1L5Y LEU A 145 UNP P13632 EXPRESSION TAG SEQADV 1L5Y ALA A 146 UNP P13632 EXPRESSION TAG SEQADV 1L5Y ALA A 147 UNP P13632 EXPRESSION TAG SEQADV 1L5Y ALA A 148 UNP P13632 EXPRESSION TAG SEQADV 1L5Y LEU A 149 UNP P13632 EXPRESSION TAG SEQADV 1L5Y GLU A 150 UNP P13632 EXPRESSION TAG SEQADV 1L5Y HIS A 151 UNP P13632 EXPRESSION TAG SEQADV 1L5Y HIS A 152 UNP P13632 EXPRESSION TAG SEQADV 1L5Y HIS A 153 UNP P13632 EXPRESSION TAG SEQADV 1L5Y HIS A 154 UNP P13632 EXPRESSION TAG SEQADV 1L5Y HIS A 155 UNP P13632 EXPRESSION TAG SEQADV 1L5Y HIS A 156 UNP P13632 EXPRESSION TAG SEQADV 1L5Y LYS B 321 UNP P13632 GLU 121 ENGINEERED MUTATION SEQADV 1L5Y LYS B 344 UNP P13632 EXPRESSION TAG SEQADV 1L5Y LEU B 345 UNP P13632 EXPRESSION TAG SEQADV 1L5Y ALA B 346 UNP P13632 EXPRESSION TAG SEQADV 1L5Y ALA B 347 UNP P13632 EXPRESSION TAG SEQADV 1L5Y ALA B 348 UNP P13632 EXPRESSION TAG SEQADV 1L5Y LEU B 349 UNP P13632 EXPRESSION TAG SEQADV 1L5Y GLU B 350 UNP P13632 EXPRESSION TAG SEQADV 1L5Y HIS B 351 UNP P13632 EXPRESSION TAG SEQADV 1L5Y HIS B 352 UNP P13632 EXPRESSION TAG SEQADV 1L5Y HIS B 353 UNP P13632 EXPRESSION TAG SEQADV 1L5Y HIS B 354 UNP P13632 EXPRESSION TAG SEQADV 1L5Y HIS B 355 UNP P13632 EXPRESSION TAG SEQADV 1L5Y HIS B 356 UNP P13632 EXPRESSION TAG SEQRES 1 A 155 SER ALA ALA PRO SER VAL PHE LEU ILE ASP ASP ASP ARG SEQRES 2 A 155 ASP LEU ARG LYS ALA MET GLN GLN THR LEU GLU LEU ALA SEQRES 3 A 155 GLY PHE THR VAL SER SER PHE ALA SER ALA THR GLU ALA SEQRES 4 A 155 LEU ALA GLY LEU SER ALA ASP PHE ALA GLY ILE VAL ILE SEQRES 5 A 155 SER ASP ILE ARG MET PRO GLY MET ASP GLY LEU ALA LEU SEQRES 6 A 155 PHE ARG LYS ILE LEU ALA LEU ASP PRO ASP LEU PRO MET SEQRES 7 A 155 ILE LEU VAL THR GLY HIS GLY ASP ILE PRO MET ALA VAL SEQRES 8 A 155 GLN ALA ILE GLN ASP GLY ALA TYR ASP PHE ILE ALA LYS SEQRES 9 A 155 PRO PHE ALA ALA ASP ARG LEU VAL GLN SER ALA ARG ARG SEQRES 10 A 155 ALA GLU LYS LYS ARG ARG LEU VAL MET GLU ASN ARG SER SEQRES 11 A 155 LEU ARG ARG ALA ALA GLU ALA ALA SER GLU GLY LEU LYS SEQRES 12 A 155 LEU ALA ALA ALA LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 155 SER ALA ALA PRO SER VAL PHE LEU ILE ASP ASP ASP ARG SEQRES 2 B 155 ASP LEU ARG LYS ALA MET GLN GLN THR LEU GLU LEU ALA SEQRES 3 B 155 GLY PHE THR VAL SER SER PHE ALA SER ALA THR GLU ALA SEQRES 4 B 155 LEU ALA GLY LEU SER ALA ASP PHE ALA GLY ILE VAL ILE SEQRES 5 B 155 SER ASP ILE ARG MET PRO GLY MET ASP GLY LEU ALA LEU SEQRES 6 B 155 PHE ARG LYS ILE LEU ALA LEU ASP PRO ASP LEU PRO MET SEQRES 7 B 155 ILE LEU VAL THR GLY HIS GLY ASP ILE PRO MET ALA VAL SEQRES 8 B 155 GLN ALA ILE GLN ASP GLY ALA TYR ASP PHE ILE ALA LYS SEQRES 9 B 155 PRO PHE ALA ALA ASP ARG LEU VAL GLN SER ALA ARG ARG SEQRES 10 B 155 ALA GLU LYS LYS ARG ARG LEU VAL MET GLU ASN ARG SER SEQRES 11 B 155 LEU ARG ARG ALA ALA GLU ALA ALA SER GLU GLY LEU LYS SEQRES 12 B 155 LEU ALA ALA ALA LEU GLU HIS HIS HIS HIS HIS HIS HET MG A 701 1 HET SO4 A 706 5 HET SO4 A 707 5 HET BEF A 660 4 HET BF2 A 662 3 HET BF2 A 663 3 HET BF2 A 664 3 HET BF2 A 665 3 HET BF2 A 667 3 HET BF2 A 669 3 HET BF2 A 670 3 HET BF2 A 671 3 HET BF4 A 673 5 HET MG B 702 1 HET SO4 B 703 5 HET SO4 B 704 5 HET BEF B 661 4 HET BF2 B 666 3 HET BF2 B 668 3 HET BEF B 672 4 HET GOL B 674 6 HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION HETNAM BEF BERYLLIUM TRIFLUORIDE ION HETNAM BF2 BERYLLIUM DIFLUORIDE HETNAM BF4 BERYLLIUM TETRAFLUORIDE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 MG 2(MG 2+) FORMUL 4 SO4 4(O4 S 2-) FORMUL 6 BEF 3(BE F3 1-) FORMUL 7 BF2 10(BE F2) FORMUL 15 BF4 BE F4 2- FORMUL 23 GOL C3 H8 O3 FORMUL 24 HOH *224(H2 O) HELIX 1 1 ASP A 13 ALA A 27 1 15 HELIX 2 2 SER A 36 GLY A 43 1 8 HELIX 3 3 ASP A 62 ASP A 74 1 13 HELIX 4 4 ASP A 87 ASP A 97 1 11 HELIX 5 5 ALA A 108 ALA A 136 1 29 HELIX 6 6 GLU A 137 SER A 140 5 4 HELIX 7 7 ASP B 213 ALA B 227 1 15 HELIX 8 8 SER B 236 ALA B 242 1 7 HELIX 9 9 ASP B 262 ASP B 274 1 13 HELIX 10 10 ASP B 287 ASP B 297 1 11 HELIX 11 11 ALA B 308 GLU B 337 1 30 HELIX 12 12 GLU B 337 LEU B 343 1 7 HELIX 13 13 LYS B 344 GLU B 350 1 7 HELIX 14 14 HIS B 351 HIS B 353 5 3 SHEET 1 A 5 THR A 30 PHE A 34 0 SHEET 2 A 5 SER A 6 ILE A 10 1 N LEU A 9 O PHE A 34 SHEET 3 A 5 ILE A 51 ASP A 55 1 O ILE A 53 N PHE A 8 SHEET 4 A 5 MET A 79 THR A 83 1 O ILE A 80 N VAL A 52 SHEET 5 A 5 ASP A 101 ALA A 104 1 O ILE A 103 N LEU A 81 SHEET 1 B 5 THR B 230 PHE B 234 0 SHEET 2 B 5 SER B 206 ILE B 210 1 N VAL B 207 O SER B 232 SHEET 3 B 5 ILE B 251 ASP B 255 1 O ILE B 253 N PHE B 208 SHEET 4 B 5 MET B 279 THR B 283 1 O ILE B 280 N SER B 254 SHEET 5 B 5 ASP B 301 ALA B 304 1 O ILE B 303 N LEU B 281 LINK OD1 ASP A 12 MG MG A 701 1555 1555 2.08 LINK OD1 ASP A 55 BE BEF A 660 1555 1555 1.83 LINK OD2 ASP A 55 MG MG A 701 1555 1555 2.13 LINK O ARG A 57 MG MG A 701 1555 1555 2.05 LINK F1 BEF A 660 MG MG A 701 1555 1555 2.12 LINK BE BEF A 660 MG MG A 701 1555 1555 3.14 LINK MG MG A 701 O HOH A 709 1555 1555 2.29 LINK MG MG A 701 O HOH A 710 1555 1555 2.37 LINK OD1 ASP B 212 MG MG B 702 1555 1555 2.18 LINK OD1 ASP B 255 BE BEF B 661 1555 1555 1.65 LINK OD2 ASP B 255 MG MG B 702 1555 1555 2.16 LINK O BARG B 257 MG MG B 702 1555 1555 2.23 LINK O AARG B 257 MG MG B 702 1555 1555 2.24 LINK F1 BEF B 661 MG MG B 702 1555 1555 2.08 LINK MG MG B 702 O HOH B 743 1555 1555 2.20 LINK MG MG B 702 O HOH B 744 1555 1555 2.27 CISPEP 1 LYS A 105 PRO A 106 0 -0.01 CISPEP 2 LYS B 305 PRO B 306 0 -0.45 SITE 1 AC1 6 ASP A 12 ASP A 55 ARG A 57 BEF A 660 SITE 2 AC1 6 HOH A 709 HOH A 710 SITE 1 AC2 6 ASP B 212 ASP B 255 ARG B 257 BEF B 661 SITE 2 AC2 6 HOH B 743 HOH B 744 SITE 1 AC3 7 LYS A 69 ARG B 214 ARG B 217 ALA B 235 SITE 2 AC3 7 HOH B 746 HOH B 747 HOH B 770 SITE 1 AC4 4 ARG A 133 BF2 A 662 ALA B 265 LYS B 269 SITE 1 AC5 11 SER A 36 THR A 38 PRO A 59 GLY A 60 SITE 2 AC5 11 HOH A 739 HOH A 744 HOH A 817 LYS B 218 SITE 3 AC5 11 GLN B 221 GOL B 674 HOH B 730 SITE 1 AC6 8 ASP A 13 HIS A 85 HOH A 709 HOH A 710 SITE 2 AC6 8 HOH A 720 HOH A 806 HIS B 351 HIS B 352 SITE 1 AC7 9 ASP A 55 ILE A 56 ARG A 57 THR A 83 SITE 2 AC7 9 GLY A 84 HIS A 85 LYS A 105 MG A 701 SITE 3 AC7 9 HOH A 709 SITE 1 AC8 9 ASP B 255 ILE B 256 ARG B 257 THR B 283 SITE 2 AC8 9 GLY B 284 HIS B 285 LYS B 305 MG B 702 SITE 3 AC8 9 HOH B 743 SITE 1 AC9 5 GLU A 141 ALA B 265 ARG B 268 LYS B 269 SITE 2 AC9 5 SO4 B 704 SITE 1 BC1 2 LYS A 121 ARG A 124 SITE 1 BC2 2 ILE A 95 GLN A 96 SITE 1 BC3 6 ILE A 103 ALA A 104 ARG A 111 HOH A 754 SITE 2 BC3 6 HOH A 784 PRO B 289 SITE 1 BC4 2 LEU A 73 LYS B 321 SITE 1 BC5 2 TYR A 100 LYS A 122 SITE 1 BC6 3 BF2 A 671 ASP B 287 ILE B 288 SITE 1 BC7 3 SER A 6 THR A 30 SER A 32 SITE 1 BC8 4 ARG A 133 ALA A 139 SER A 140 HOH A 781 SITE 1 BC9 3 ASP A 87 ILE A 88 BF2 B 668 SITE 1 CC1 5 ALA A 108 ALA A 109 GLU B 337 SER B 340 SITE 2 CC1 5 HOH B 777 SITE 1 CC2 5 ASP A 12 ARG A 14 ARG A 17 ALA A 35 SITE 2 CC2 5 HOH A 730 SITE 1 CC3 7 THR A 38 GLU A 39 SO4 A 706 HOH A 744 SITE 2 CC3 7 LYS B 218 ASN B 329 ARG B 333 CRYST1 52.005 76.837 77.853 90.00 90.00 90.00 P 21 21 21 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 0.019229 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013015 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012845 0.00000