HEADER TRANSCRIPTION/RNA 14-JUL-04 1WMQ TITLE STRUCTURE OF THE HUTP ANTITERMINATION COMPLEX BOUND TO A SINGLE TITLE 2 STRANDED REGION OF HUT MRNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-R(P*UP*UP*UP*AP*GP*UP*U)-3'; COMPND 3 CHAIN: C, D; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: HUT OPERON POSITIVE REGULATORY PROTEIN; COMPND 7 CHAIN: A, B; COMPND 8 SYNONYM: HUTP; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 5 ORGANISM_TAXID: 1423; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: PETHP4; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET5A KEYWDS HUTP, PROTEIN-RNA COMPLEX, ANTITERMINATION, RNA BINDING, KEYWDS 2 TRANSCRIPTION REGULATION, TRANSCRIPTION-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.S.KUMAREVEL,H.MIZUNO,P.K.R.KUMAR REVDAT 5 25-OCT-23 1WMQ 1 REMARK REVDAT 4 10-NOV-21 1WMQ 1 REMARK SEQADV LINK REVDAT 3 11-OCT-17 1WMQ 1 REMARK REVDAT 2 24-FEB-09 1WMQ 1 VERSN REVDAT 1 15-MAR-05 1WMQ 0 JRNL AUTH T.KUMAREVEL,H.MIZUNO,P.K.KUMAR JRNL TITL STRUCTURAL BASIS OF HUTP-MEDIATED ANTI-TERMINATION AND ROLES JRNL TITL 2 OF THE MG2+ ION AND L-HISTIDINE LIGAND. JRNL REF NATURE V. 434 183 2005 JRNL REFN ISSN 0028-0836 JRNL PMID 15758992 JRNL DOI 10.1038/NATURE03355 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.S.KUMAREVEL,S.C.GOPINATH,S.NISHIKAWA,H.MIZUNO,P.K.R.KUMAR REMARK 1 TITL IDENTIFICATION OF IMPORTANT CHEMICAL GROUPS OF THE HUT MRNA REMARK 1 TITL 2 FOR HUTP INTERACTIONS THAT REGULATE THE HUT OPERON IN REMARK 1 TITL 3 BACILLUS SUBTILIS REMARK 1 REF NUCLEIC ACIDS RES. V. 32 3904 2004 REMARK 1 REFN ISSN 0305-1048 REMARK 1 PMID 15273277 REMARK 1 DOI 10.1093/NAR/GKH725 REMARK 1 REFERENCE 2 REMARK 1 AUTH T.S.KUMAREVEL,Z.FUJIMOTO,P.KARTHE,M.ODA,H.MIZUNO,P.K.R.KUMAR REMARK 1 TITL CRYSTAL STRUCTURE OF ACTIVATED HUTP; AN RNA BINDING PROTEIN REMARK 1 TITL 2 THAT REGULATES TRANSCRIPTION OF THE HUT OPERON IN BACILLUS REMARK 1 TITL 3 SUBTILIS REMARK 1 REF STRUCTURE V. 12 1269 2004 REMARK 1 REFN ISSN 0969-2126 REMARK 1 PMID 15242603 REMARK 1 DOI 10.1016/J.STR.2004.05.005 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.99 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1932839.510 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 38063 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) : 0.225 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1892 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.70 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 6028 REMARK 3 BIN R VALUE (WORKING SET) : 0.2850 REMARK 3 BIN FREE R VALUE : 0.3350 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 303 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.019 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2197 REMARK 3 NUCLEIC ACID ATOMS : 290 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 314 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.88000 REMARK 3 B22 (A**2) : -1.88000 REMARK 3 B33 (A**2) : 3.76000 REMARK 3 B12 (A**2) : -0.31000 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) : 0.21 REMARK 3 ESD FROM SIGMAA (A) : 0.18 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) : 0.25 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.22 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.40 REMARK 3 IMPROPER ANGLES (DEGREES) : 2.520 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) : 1.170 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.800 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.880 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.890 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 71.16 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.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : DNA-RNA_REP.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1WMQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-JUL-04. REMARK 100 THE DEPOSITION ID IS D_1000023752. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-JUN-04 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NW12A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38073 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.02900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.25800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP, PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1VEA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 30.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MPD, MAGNESIUM CHLORIDE, HEPES, PH REMARK 280 7.4, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.10500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 21.99993 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 44.52000 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 38.10500 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 21.99993 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 44.52000 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 38.10500 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 21.99993 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 44.52000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 43.99986 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 89.04000 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 43.99986 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 89.04000 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 43.99986 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 89.04000 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A HEXAMER GENERATED FROM THE REMARK 300 DIMER IN THE ASYMMETRIC UNIT BY THE OPERATIONS: -Y, X-Y, Z AND -X+Y, REMARK 300 -X, Z 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: DODECAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B3039 LIES ON A SPECIAL POSITION. 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 GLU A 20 REMARK 465 ALA A 21 REMARK 465 GLU A 22 REMARK 465 GLU A 23 REMARK 465 ALA B 21 REMARK 465 GLU B 22 REMARK 465 GLU B 23 REMARK 465 SER B 24 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 28 CG CD OE1 OE2 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 LYS A 5 CB REMARK 480 LEU A 15 CD1 REMARK 480 LEU A 17 CD2 REMARK 480 ASN A 19 CG OD1 REMARK 480 THR A 25 CB OG1 CG2 REMARK 480 GLN A 26 CG CD NE2 REMARK 480 GLU A 29 CG CD OE1 OE2 REMARK 480 ARG A 32 CG CD NH2 REMARK 480 LYS A 36 CD CE NZ REMARK 480 LYS A 41 CG CD CE REMARK 480 LYS A 60 CG CE NZ REMARK 480 SER A 66 OG REMARK 480 GLU A 67 CG CD OE1 OE2 REMARK 480 ARG A 70 CG NH2 REMARK 480 GLU A 81 OE2 REMARK 480 GLU A 113 CG REMARK 480 GLU A 115 CB CG OE2 REMARK 480 THR B 2 CB OG1 CG2 REMARK 480 GLU B 6 CG CD OE1 OE2 REMARK 480 ARG B 11 CG REMARK 480 VAL B 14 CG2 REMARK 480 ASN B 19 CG OD1 REMARK 480 THR B 25 CB OG1 CG2 REMARK 480 GLN B 26 CG NE2 REMARK 480 GLU B 28 CB REMARK 480 GLU B 29 CG CD OE1 OE2 REMARK 480 ARG B 32 NE CZ NH2 REMARK 480 LYS B 36 CD CE NZ REMARK 480 LYS B 49 CE NZ REMARK 480 GLN B 65 NE2 REMARK 480 GLU B 67 CG CD OE1 OE2 REMARK 480 MET B 80 CE REMARK 480 GLU B 115 CB REMARK 480 ILE B 133 CD1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O2' G C 5 O PRO A 132 2.10 REMARK 500 O GLU A 29 OD1 ASP A 33 2.13 REMARK 500 O2' G D 5 O PRO B 132 2.13 REMARK 500 O GLU B 20 NH2 ARG B 103 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 P U C 1 O3' U C 7 2555 1.00 REMARK 500 P U D 1 O3' U D 7 3555 1.40 REMARK 500 OP2 U C 1 O3' U C 7 2555 1.65 REMARK 500 O2' U C 7 OG1 THR A 56 3555 1.70 REMARK 500 OP2 U D 1 O3' U D 7 3555 1.76 REMARK 500 O2' U D 7 OG1 THR B 56 2555 1.82 REMARK 500 OP1 U C 1 O3' U C 7 2555 2.02 REMARK 500 REMARK 500 REMARK: NULL 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 U C 6 C2' U C 6 O2' 0.120 REMARK 500 U C 7 C2' U C 7 O2' 0.120 REMARK 500 U D 7 C2' U D 7 O2' 0.120 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 U C 6 O3' - P - OP1 ANGL. DEV. = 6.9 DEGREES REMARK 500 U C 6 OP1 - P - OP2 ANGL. DEV. = -11.6 DEGREES REMARK 500 U C 7 O3' - P - O5' ANGL. DEV. = 11.7 DEGREES REMARK 500 U C 7 OP1 - P - OP2 ANGL. DEV. = -10.5 DEGREES REMARK 500 U D 7 O3' - P - OP2 ANGL. DEV. = 8.9 DEGREES REMARK 500 U D 7 O3' - P - OP1 ANGL. DEV. = 8.2 DEGREES REMARK 500 U D 7 OP1 - P - OP2 ANGL. DEV. = -11.5 DEGREES REMARK 500 THR A 25 CA - C - N ANGL. DEV. = -18.0 DEGREES REMARK 500 THR A 25 O - C - N ANGL. DEV. = 16.2 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 THR A 25 72.10 36.92 REMARK 500 LEU A 93 -87.76 -117.30 REMARK 500 LEU B 93 -87.99 -117.85 REMARK 500 REMARK 500 REMARK: NULL REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 HIS A 2001 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 A3002 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 73 NE2 REMARK 620 2 HIS A 77 NE2 87.5 REMARK 620 3 HIS A 138 NE2 91.5 178.1 REMARK 620 4 HIS A2001 O 167.2 94.4 87.0 REMARK 620 5 HIS A2001 N 92.4 83.5 98.2 75.2 REMARK 620 6 HOH A3047 O 94.3 89.3 89.1 98.4 169.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B3001 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A3048 O REMARK 620 2 HIS B 73 NE2 93.0 REMARK 620 3 HIS B 77 NE2 89.5 88.0 REMARK 620 4 HIS B 138 NE2 92.2 91.9 178.2 REMARK 620 5 HIS B1001 N 173.5 93.5 90.6 87.7 REMARK 620 6 HIS B1001 O 98.4 168.4 94.4 85.3 75.2 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 B 3001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 3002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HIS B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HIS A 2001 DBREF 1WMQ A 2 148 UNP P10943 HUTP_BACSU 1 147 DBREF 1WMQ B 2 148 UNP P10943 HUTP_BACSU 1 147 DBREF 1WMQ C 1 7 PDB 1WMQ 1WMQ 1 7 DBREF 1WMQ D 1 7 PDB 1WMQ 1WMQ 1 7 SEQADV 1WMQ ILE A 51 UNP P10943 VAL 50 ENGINEERED MUTATION SEQADV 1WMQ ILE B 51 UNP P10943 VAL 50 ENGINEERED MUTATION SEQRES 1 C 7 U U U A G U U SEQRES 1 D 7 U U U A G U U SEQRES 1 A 147 THR LEU HIS LYS GLU ARG ARG ILE GLY ARG LEU SER VAL SEQRES 2 A 147 LEU LEU LEU LEU ASN GLU ALA GLU GLU SER THR GLN VAL SEQRES 3 A 147 GLU GLU LEU GLU ARG ASP GLY TRP LYS VAL CYS LEU GLY SEQRES 4 A 147 LYS VAL GLY SER MET ASP ALA HIS LYS VAL ILE ALA ALA SEQRES 5 A 147 ILE GLU THR ALA SER LYS LYS SER GLY VAL ILE GLN SER SEQRES 6 A 147 GLU GLY TYR ARG GLU SER HIS ALA LEU TYR HIS ALA THR SEQRES 7 A 147 MET GLU ALA LEU HIS GLY VAL THR ARG GLY GLU MET LEU SEQRES 8 A 147 LEU GLY SER LEU LEU ARG THR VAL GLY LEU ARG PHE ALA SEQRES 9 A 147 VAL LEU ARG GLY ASN PRO TYR GLU SER GLU ALA GLU GLY SEQRES 10 A 147 ASP TRP ILE ALA VAL SER LEU TYR GLY THR ILE GLY ALA SEQRES 11 A 147 PRO ILE LYS GLY LEU GLU HIS GLU THR PHE GLY VAL GLY SEQRES 12 A 147 ILE ASN HIS ILE SEQRES 1 B 147 THR LEU HIS LYS GLU ARG ARG ILE GLY ARG LEU SER VAL SEQRES 2 B 147 LEU LEU LEU LEU ASN GLU ALA GLU GLU SER THR GLN VAL SEQRES 3 B 147 GLU GLU LEU GLU ARG ASP GLY TRP LYS VAL CYS LEU GLY SEQRES 4 B 147 LYS VAL GLY SER MET ASP ALA HIS LYS VAL ILE ALA ALA SEQRES 5 B 147 ILE GLU THR ALA SER LYS LYS SER GLY VAL ILE GLN SER SEQRES 6 B 147 GLU GLY TYR ARG GLU SER HIS ALA LEU TYR HIS ALA THR SEQRES 7 B 147 MET GLU ALA LEU HIS GLY VAL THR ARG GLY GLU MET LEU SEQRES 8 B 147 LEU GLY SER LEU LEU ARG THR VAL GLY LEU ARG PHE ALA SEQRES 9 B 147 VAL LEU ARG GLY ASN PRO TYR GLU SER GLU ALA GLU GLY SEQRES 10 B 147 ASP TRP ILE ALA VAL SER LEU TYR GLY THR ILE GLY ALA SEQRES 11 B 147 PRO ILE LYS GLY LEU GLU HIS GLU THR PHE GLY VAL GLY SEQRES 12 B 147 ILE ASN HIS ILE HET MG A3002 1 HET HIS A2001 11 HET MG B3001 1 HET HIS B1001 11 HETNAM MG MAGNESIUM ION HETNAM HIS HISTIDINE FORMUL 5 MG 2(MG 2+) FORMUL 6 HIS 2(C6 H10 N3 O2 1+) FORMUL 9 HOH *314(H2 O) HELIX 1 1 HIS A 4 ARG A 7 5 4 HELIX 2 2 ARG A 8 ASN A 19 1 12 HELIX 3 3 THR A 25 ASP A 33 1 9 HELIX 4 4 ASP A 46 SER A 61 1 16 HELIX 5 5 TYR A 69 ARG A 88 1 20 HELIX 6 6 LEU A 93 LEU A 97 5 5 HELIX 7 7 SER A 114 GLY A 118 5 5 HELIX 8 8 ARG B 8 ASN B 19 1 12 HELIX 9 9 THR B 25 ASP B 33 1 9 HELIX 10 10 ASP B 46 SER B 61 1 16 HELIX 11 11 TYR B 69 ARG B 88 1 20 HELIX 12 12 LEU B 93 LEU B 97 5 5 HELIX 13 13 SER B 114 GLY B 118 5 5 SHEET 1 A 4 LYS A 36 SER A 44 0 SHEET 2 A 4 THR A 99 GLY A 109 -1 O LEU A 102 N VAL A 42 SHEET 3 A 4 TRP A 120 GLY A 130 -1 O SER A 124 N ALA A 105 SHEET 4 A 4 GLU A 137 HIS A 147 -1 O ASN A 146 N ILE A 121 SHEET 1 B 4 LYS B 36 SER B 44 0 SHEET 2 B 4 THR B 99 GLY B 109 -1 O LEU B 102 N VAL B 42 SHEET 3 B 4 TRP B 120 GLY B 130 -1 O SER B 124 N ALA B 105 SHEET 4 B 4 GLU B 137 HIS B 147 -1 O ASN B 146 N ILE B 121 LINK NE2 HIS A 73 MG MG A3002 3555 1555 2.30 LINK NE2 HIS A 77 MG MG A3002 3555 1555 2.31 LINK NE2 HIS A 138 MG MG A3002 1555 1555 2.33 LINK O HIS A2001 MG MG A3002 1555 1555 2.12 LINK N HIS A2001 MG MG A3002 1555 1555 2.42 LINK MG MG A3002 O HOH A3047 1555 3555 2.21 LINK O HOH A3048 MG MG B3001 1555 1555 2.20 LINK NE2 HIS B 73 MG MG B3001 2555 1555 2.33 LINK NE2 HIS B 77 MG MG B3001 2555 1555 2.29 LINK NE2 HIS B 138 MG MG B3001 1555 1555 2.32 LINK N HIS B1001 MG MG B3001 1555 1555 2.30 LINK O HIS B1001 MG MG B3001 1555 1555 2.16 SITE 1 AC1 5 HOH A3048 HIS B 73 HIS B 77 HIS B 138 SITE 2 AC1 5 HIS B1001 SITE 1 AC2 5 HIS A 73 HIS A 77 HIS A 138 HIS A2001 SITE 2 AC2 5 HOH A3047 SITE 1 AC3 12 TYR B 69 HIS B 73 TYR B 76 HIS B 77 SITE 2 AC3 12 ARG B 88 ARG B 98 ILE B 129 GLY B 130 SITE 3 AC3 12 ALA B 131 HIS B 138 MG B3001 HOH B3106 SITE 1 AC4 11 TYR A 69 TYR A 76 HIS A 77 ARG A 88 SITE 2 AC4 11 ARG A 98 ILE A 129 GLY A 130 ALA A 131 SITE 3 AC4 11 HIS A 138 MG A3002 HOH A3137 CRYST1 76.210 76.210 133.560 90.00 90.00 120.00 H 3 18 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 0.013122 0.007576 0.000000 0.00000 SCALE2 0.000000 0.015152 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007487 0.00000