HEADER TRANSFERASE 09-SEP-11 3TQD TITLE STRUCTURE OF THE 3-DEOXY-D-MANNO-OCTULOSONATE CYTIDYLYLTRANSFERASE TITLE 2 (KDSB) FROM COXIELLA BURNETII COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3-DEOXY-MANNO-OCTULOSONATE CYTIDYLYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CMP-2-KETO-3-DEOXYOCTULOSONIC ACID SYNTHASE, CKS, CMP-KDO COMPND 5 SYNTHASE; COMPND 6 EC: 2.7.7.38; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: COXIELLA BURNETII; SOURCE 3 ORGANISM_TAXID: 777; SOURCE 4 STRAIN: RSA 493 NINE MILE PHASE I; SOURCE 5 GENE: CBU_0479, KDSB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET KEYWDS CELL ENVELOPE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.C.FRANKLIN,J.CHEUNG,M.RUDOLPH,M.CASSIDY,E.GARY,F.BURSHTEYN,J.LOVE REVDAT 7 06-NOV-24 3TQD 1 REMARK REVDAT 6 06-DEC-23 3TQD 1 REMARK REVDAT 5 13-SEP-23 3TQD 1 REMARK SEQADV LINK REVDAT 4 10-FEB-16 3TQD 1 JRNL REVDAT 3 21-OCT-15 3TQD 1 JRNL REVDAT 2 24-JUN-15 3TQD 1 JRNL REVDAT 1 26-OCT-11 3TQD 0 JRNL AUTH M.C.FRANKLIN,J.CHEUNG,M.J.RUDOLPH,F.BURSHTEYN,M.CASSIDY, JRNL AUTH 2 E.GARY,B.HILLERICH,Z.K.YAO,P.R.CARLIER,M.TOTROV,J.D.LOVE JRNL TITL STRUCTURAL GENOMICS FOR DRUG DESIGN AGAINST THE PATHOGEN JRNL TITL 2 COXIELLA BURNETII. JRNL REF PROTEINS V. 83 2124 2015 JRNL REFN ISSN 0887-3585 JRNL PMID 26033498 JRNL DOI 10.1002/PROT.24841 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.62 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 3 NUMBER OF REFLECTIONS : 22946 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 + TEST SET) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1184 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1409 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 84.29 REMARK 3 BIN R VALUE (WORKING SET) : 0.3060 REMARK 3 BIN FREE R VALUE SET COUNT : 72 REMARK 3 BIN FREE R VALUE : 0.3170 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1921 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 170 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.65 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.23000 REMARK 3 B22 (A**2) : 2.06000 REMARK 3 B33 (A**2) : -2.09000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.27000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.131 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.090 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.379 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1966 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1330 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2666 ; 1.653 ; 1.959 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3231 ; 0.976 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 240 ; 6.181 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 97 ;35.052 ;23.918 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 325 ;14.428 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;15.824 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 293 ; 0.101 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2199 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 397 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1215 ; 1.018 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 486 ; 0.301 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1957 ; 1.747 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 751 ; 2.781 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 709 ; 4.418 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 249 REMARK 3 ORIGIN FOR THE GROUP (A): -5.3440 42.4897 17.3260 REMARK 3 T TENSOR REMARK 3 T11: 0.0735 T22: 0.0639 REMARK 3 T33: 0.1059 T12: -0.0183 REMARK 3 T13: -0.0282 T23: -0.0114 REMARK 3 L TENSOR REMARK 3 L11: 1.4572 L22: 0.6737 REMARK 3 L33: 5.1591 L12: -0.0438 REMARK 3 L13: -1.3794 L23: -0.3053 REMARK 3 S TENSOR REMARK 3 S11: 0.0082 S12: -0.2806 S13: -0.0023 REMARK 3 S21: 0.1488 S22: -0.0025 S23: -0.0387 REMARK 3 S31: 0.0588 S32: 0.1693 S33: -0.0057 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3TQD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-SEP-11. REMARK 100 THE DEPOSITION ID IS D_1000067791. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAR-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 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 MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : VARIMAX HF REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23093 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 9.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 39.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.45400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.300 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: PDB ENTRY 3K8D REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.17 M AMMONIUM ACETATE, 0.085 M NA REMARK 280 CITRATE, 25.5% PEG 4000, 15% GLYCEROL, PH 5.6, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 298K 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 33.87600 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.80800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 33.87600 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 25.80800 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -38.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER A -6 REMARK 465 ASN A -5 REMARK 465 ALA A -4 REMARK 465 MSE A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 LYS A 0 REMARK 465 MSE A 1 REMARK 465 SER A 13 REMARK 465 THR A 14 REMARK 465 ARG A 15 REMARK 465 ASN A 121 REMARK 465 VAL A 122 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 LYS A 123 CG CD CE NZ 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 O HOH A 388 O HOH A 411 2.08 REMARK 500 O HOH A 378 O HOH A 421 2.19 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 NZ LYS A 111 OD2 ASP A 170 4445 2.07 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 CYS A 232 CB CYS A 232 SG -0.169 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 TYR A 189 CA - CB - CG ANGL. DEV. = 11.6 DEGREES 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 NI A 300 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 173 O REMARK 620 2 GLN A 175 OE1 92.1 REMARK 620 3 HOH A 294 O 91.7 93.8 REMARK 620 4 HOH A 297 O 93.0 93.1 171.5 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 NI A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 400 REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUES -3 TO 0 REPRESENT AN INCORRECTLY CHOSEN N TERMINUS FOR REMARK 999 THIS EXPRESSION CONSTRUCT DBREF 3TQD A 1 249 UNP Q83E52 KDSB_COXBU 1 249 SEQADV 3TQD SER A -6 UNP Q83E52 EXPRESSION TAG SEQADV 3TQD ASN A -5 UNP Q83E52 EXPRESSION TAG SEQADV 3TQD ALA A -4 UNP Q83E52 EXPRESSION TAG SEQADV 3TQD MSE A -3 UNP Q83E52 SEE REMARK 999 SEQADV 3TQD ARG A -2 UNP Q83E52 SEE REMARK 999 SEQADV 3TQD GLY A -1 UNP Q83E52 SEE REMARK 999 SEQADV 3TQD LYS A 0 UNP Q83E52 SEE REMARK 999 SEQRES 1 A 256 SER ASN ALA MSE ARG GLY LYS MSE GLU PHE ARG VAL ILE SEQRES 2 A 256 ILE PRO ALA ARG PHE ASP SER THR ARG LEU PRO GLY LYS SEQRES 3 A 256 ALA LEU VAL ASP ILE ALA GLY LYS PRO MSE ILE GLN HIS SEQRES 4 A 256 VAL TYR GLU SER ALA ILE LYS SER GLY ALA GLU GLU VAL SEQRES 5 A 256 VAL ILE ALA THR ASP ASP LYS ARG ILE ARG GLN VAL ALA SEQRES 6 A 256 GLU ASP PHE GLY ALA VAL VAL CYS MSE THR SER SER ASP SEQRES 7 A 256 HIS GLN SER GLY THR GLU ARG ILE ALA GLU ALA ALA VAL SEQRES 8 A 256 ALA LEU GLY PHE GLU ASP ASP GLU ILE ILE VAL CYS LEU SEQRES 9 A 256 GLN GLY ASP GLU PRO LEU ILE PRO PRO ASP ALA ILE ARG SEQRES 10 A 256 LYS LEU ALA GLU ASP LEU ASP GLU HIS ASP ASN VAL LYS SEQRES 11 A 256 VAL ALA SER LEU CYS THR PRO ILE THR GLU VAL ASP GLU SEQRES 12 A 256 LEU PHE ASN PRO HIS SER THR LYS VAL VAL LEU ASN ARG SEQRES 13 A 256 ARG ASN TYR ALA LEU TYR PHE SER HIS ALA PRO ILE PRO SEQRES 14 A 256 TRP GLY ARG ASP THR PHE SER ASP LYS GLU ASN LEU GLN SEQRES 15 A 256 LEU ASN GLY SER HIS TYR ARG HIS VAL GLY ILE TYR ALA SEQRES 16 A 256 TYR ARG VAL GLY PHE LEU GLU GLU TYR LEU SER TRP ASP SEQRES 17 A 256 ALA CYS PRO ALA GLU LYS MSE GLU ALA LEU GLU GLN LEU SEQRES 18 A 256 ARG ILE LEU TRP HIS GLY GLY ARG ILE HIS MSE VAL VAL SEQRES 19 A 256 ALA LYS SER LYS CYS PRO PRO GLY VAL ASP THR GLU GLU SEQRES 20 A 256 ASP LEU GLU ARG VAL ARG ALA TYR PHE MODRES 3TQD MSE A 29 MET SELENOMETHIONINE MODRES 3TQD MSE A 67 MET SELENOMETHIONINE MODRES 3TQD MSE A 208 MET SELENOMETHIONINE MODRES 3TQD MSE A 225 MET SELENOMETHIONINE HET MSE A 29 8 HET MSE A 67 8 HET MSE A 208 8 HET MSE A 225 8 HET NI A 300 1 HET ACT A 400 4 HETNAM MSE SELENOMETHIONINE HETNAM NI NICKEL (II) ION HETNAM ACT ACETATE ION FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 2 NI NI 2+ FORMUL 3 ACT C2 H3 O2 1- FORMUL 4 HOH *170(H2 O) HELIX 1 1 GLY A 18 LEU A 21 5 4 HELIX 2 2 MSE A 29 SER A 40 1 12 HELIX 3 3 ASP A 51 PHE A 61 1 11 HELIX 4 4 SER A 74 LEU A 86 1 13 HELIX 5 5 PRO A 105 HIS A 119 1 15 HELIX 6 6 GLU A 133 PHE A 138 1 6 HELIX 7 7 ASP A 170 LEU A 174 5 5 HELIX 8 8 VAL A 191 TRP A 200 1 10 HELIX 9 9 CYS A 203 ALA A 210 1 8 HELIX 10 10 GLN A 213 HIS A 219 1 7 HELIX 11 11 THR A 238 ALA A 247 1 10 SHEET 1 A 7 VAL A 64 MSE A 67 0 SHEET 2 A 7 GLU A 44 THR A 49 1 N ILE A 47 O CYS A 66 SHEET 3 A 7 ARG A 4 PRO A 8 1 N ILE A 7 O VAL A 46 SHEET 4 A 7 ILE A 93 LEU A 97 1 O VAL A 95 N ARG A 4 SHEET 5 A 7 TYR A 181 ARG A 190 -1 O TYR A 187 N CYS A 96 SHEET 6 A 7 LYS A 144 LEU A 147 -1 N VAL A 145 O TYR A 181 SHEET 7 A 7 ALA A 153 SER A 157 -1 O SER A 157 N LYS A 144 SHEET 1 B 7 VAL A 64 MSE A 67 0 SHEET 2 B 7 GLU A 44 THR A 49 1 N ILE A 47 O CYS A 66 SHEET 3 B 7 ARG A 4 PRO A 8 1 N ILE A 7 O VAL A 46 SHEET 4 B 7 ILE A 93 LEU A 97 1 O VAL A 95 N ARG A 4 SHEET 5 B 7 TYR A 181 ARG A 190 -1 O TYR A 187 N CYS A 96 SHEET 6 B 7 VAL A 124 PRO A 130 -1 N THR A 129 O ARG A 182 SHEET 7 B 7 HIS A 224 VAL A 227 1 O HIS A 224 N SER A 126 SHEET 1 C 2 ASP A 23 ILE A 24 0 SHEET 2 C 2 LYS A 27 PRO A 28 -1 O LYS A 27 N ILE A 24 LINK C PRO A 28 N MSE A 29 1555 1555 1.34 LINK C MSE A 29 N ILE A 30 1555 1555 1.33 LINK C CYS A 66 N MSE A 67 1555 1555 1.34 LINK C MSE A 67 N THR A 68 1555 1555 1.32 LINK C LYS A 207 N MSE A 208 1555 1555 1.33 LINK C MSE A 208 N GLU A 209 1555 1555 1.31 LINK C HIS A 224 N MSE A 225 1555 1555 1.33 LINK C MSE A 225 N VAL A 226 1555 1555 1.34 LINK O ASN A 173 NI NI A 300 1555 1555 2.17 LINK OE1 GLN A 175 NI NI A 300 1555 1555 2.46 LINK O HOH A 294 NI NI A 300 1555 1555 2.49 LINK O HOH A 297 NI NI A 300 1555 1555 2.54 CISPEP 1 ILE A 161 PRO A 162 0 -4.63 SITE 1 AC1 4 ASN A 173 GLN A 175 HOH A 294 HOH A 297 SITE 1 AC2 5 GLN A 31 TYR A 34 GLU A 35 PHE A 61 SITE 2 AC2 5 HOH A 393 CRYST1 67.752 51.616 78.874 90.00 111.92 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 0.014760 0.000000 0.005939 0.00000 SCALE2 0.000000 0.019374 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013666 0.00000