HEADER TRANSFERASE 27-MAR-15 4Z1C TITLE STRUCTURE OF CADMIUM BOUND KDO8PS FROM H.PYLORI COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-DEHYDRO-3-DEOXYPHOSPHOOCTONATE ALDOLASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: 3-DEOXY-D-MANNO-OCTULOSONIC ACID 8-PHOSPHATE SYNTHASE,KDO-8- COMPND 5 PHOSPHATE SYNTHASE,KDOPS,PHOSPHO-2-DEHYDRO-3-DEOXYOCTONATE ALDOLASE; COMPND 6 EC: 2.5.1.55; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI (STRAIN ATCC 700392 / SOURCE 3 26695); SOURCE 4 ORGANISM_TAXID: 85962; SOURCE 5 STRAIN: ATCC 700392 / 26695; SOURCE 6 GENE: KDSA, HP_0003; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PCOLD I KEYWDS HELICOBACTER PYLORI, LIPOPOLYSACCHARIDE BIOSYNTHESIS, METAL BOUND, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR B.J.LEE,S.CHO,H.IM,H.J.YOON REVDAT 2 20-MAR-24 4Z1C 1 JRNL REMARK LINK REVDAT 1 09-MAR-16 4Z1C 0 JRNL AUTH S.CHO,H.IM,K.Y.LEE,J.CHEN,H.J.KANG,H.J.YOON,K.H.MIN,K.R.LEE, JRNL AUTH 2 H.J.PARK,B.J.LEE JRNL TITL IDENTIFICATION OF NOVEL SCAFFOLDS FOR POTENTIAL JRNL TITL 2 ANTI-HELICOBACTER PYLORI AGENTS BASED ON THE CRYSTAL JRNL TITL 3 STRUCTURE OF H. PYLORI 3-DEOXY-D-MANNO-OCTULOSONATE JRNL TITL 4 8-PHOSPHATE SYNTHASE (HPKDO8PS). JRNL REF EUR.J.MED.CHEM. V. 108 188 2016 JRNL REFN ISSN 0223-5234 JRNL PMID 26649906 JRNL DOI 10.1016/J.EJMECH.2015.11.036 REMARK 2 REMARK 2 RESOLUTION. 1.93 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 1.93 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.1 REMARK 3 NUMBER OF REFLECTIONS : 36113 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1915 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.93 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.98 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2725 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.11 REMARK 3 BIN R VALUE (WORKING SET) : 0.3280 REMARK 3 BIN FREE R VALUE SET COUNT : 138 REMARK 3 BIN FREE R VALUE : 0.3540 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4002 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 352 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.47 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.58000 REMARK 3 B22 (A**2) : -1.02000 REMARK 3 B33 (A**2) : -0.70000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.90000 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): 0.148 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.095 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.361 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4068 ; 0.009 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4004 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5492 ; 1.362 ; 1.978 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9230 ; 1.199 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 510 ; 6.049 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 174 ;39.935 ;25.057 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 748 ;16.247 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;15.121 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 634 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4556 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 876 ; 0.002 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 4068 ; 3.275 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 104 ;29.128 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 4261 ;10.869 ; 5.000 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 4Z1C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-APR-15. REMARK 100 THE DEPOSITION ID IS D_1000208436. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 5C (4A) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36113 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.930 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.2 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 32.8500 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 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, HEPES, MAGNESIUM CHLORIDE, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 70.17650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.50850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 70.17650 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 25.50850 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: 2930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 KCAL/MOL 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 MET A 1 REMARK 465 LYS A 2 REMARK 465 THR A 3 REMARK 465 SER A 4 REMARK 465 LYS A 5 REMARK 465 THR A 6 REMARK 465 LYS A 7 REMARK 465 THR A 8 REMARK 465 PRO A 9 REMARK 465 GLY A 210 REMARK 465 GLY A 211 REMARK 465 ALA A 212 REMARK 465 ASN A 213 REMARK 465 GLY A 214 REMARK 465 LYS A 215 REMARK 465 SER A 216 REMARK 465 SER A 217 REMARK 465 GLY A 218 REMARK 465 ASP A 219 REMARK 465 MET B 1 REMARK 465 LYS B 2 REMARK 465 THR B 3 REMARK 465 SER B 4 REMARK 465 LYS B 5 REMARK 465 THR B 6 REMARK 465 LYS B 7 REMARK 465 THR B 8 REMARK 465 PRO B 9 REMARK 465 GLY B 210 REMARK 465 GLY B 211 REMARK 465 ALA B 212 REMARK 465 ASN B 213 REMARK 465 GLY B 214 REMARK 465 LYS B 215 REMARK 465 SER B 216 REMARK 465 SER B 217 REMARK 465 GLY B 218 REMARK 465 ASP B 219 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 LEU A 70 CB - CG - CD2 ANGL. DEV. = 10.7 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 ASN A 54 47.36 -140.78 REMARK 500 GLN A 207 118.04 -36.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 580 DISTANCE = 5.81 ANGSTROMS REMARK 525 HOH A 581 DISTANCE = 5.83 ANGSTROMS REMARK 525 HOH A 582 DISTANCE = 6.12 ANGSTROMS REMARK 525 HOH A 583 DISTANCE = 6.64 ANGSTROMS 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 CD A 300 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 18 SG REMARK 620 2 HIS A 204 NE2 164.2 REMARK 620 3 GLU A 241 OE1 97.9 93.9 REMARK 620 4 GLU A 241 OE2 96.1 82.7 52.7 REMARK 620 5 HOH A 542 O 87.2 84.7 162.0 144.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD B 300 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 18 SG REMARK 620 2 HIS B 204 NE2 171.3 REMARK 620 3 GLU B 241 OE1 98.8 84.2 REMARK 620 4 GLU B 241 OE2 97.0 78.3 51.8 REMARK 620 5 HOH B 522 O 84.7 93.4 172.2 135.0 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CD A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CD B 300 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4Z1A RELATED DB: PDB REMARK 900 APO FORM OF THE SAME PROTEIN REMARK 900 RELATED ID: 4Z1B RELATED DB: PDB REMARK 900 MUTANT OF THE SAME PROTEIN REMARK 900 RELATED ID: 4Z1D RELATED DB: PDB DBREF 4Z1C A 1 276 UNP P56060 KDSA_HELPY 1 276 DBREF 4Z1C B 1 276 UNP P56060 KDSA_HELPY 1 276 SEQRES 1 A 276 MET LYS THR SER LYS THR LYS THR PRO LYS SER VAL LEU SEQRES 2 A 276 ILE ALA GLY PRO CYS VAL ILE GLU SER LEU GLU ASN LEU SEQRES 3 A 276 ARG SER ILE ALA THR LYS LEU GLN PRO LEU ALA ASN ASN SEQRES 4 A 276 GLU ARG LEU ASP PHE TYR PHE LYS ALA SER PHE ASP LYS SEQRES 5 A 276 ALA ASN ARG THR SER LEU GLU SER TYR ARG GLY PRO GLY SEQRES 6 A 276 LEU GLU LYS GLY LEU GLU MET LEU GLN THR ILE LYS GLU SEQRES 7 A 276 GLU PHE GLY TYR LYS ILE LEU THR ASP VAL HIS GLU SER SEQRES 8 A 276 TYR GLN ALA SER VAL ALA ALA LYS VAL ALA ASP ILE LEU SEQRES 9 A 276 GLN ILE PRO ALA PHE LEU CYS ARG GLN THR ASP LEU ILE SEQRES 10 A 276 VAL GLU VAL SER GLN THR ASN ALA ILE VAL ASN ILE LYS SEQRES 11 A 276 LYS GLY GLN PHE MET ASN PRO LYS ASP MET GLN TYR SER SEQRES 12 A 276 VAL LEU LYS ALA LEU LYS THR ARG ASP LYS SER ILE GLN SEQRES 13 A 276 SER PRO THR TYR GLU THR ALA LEU LYS ASN GLY VAL TRP SEQRES 14 A 276 LEU CYS GLU ARG GLY SER SER PHE GLY TYR GLY ASN LEU SEQRES 15 A 276 VAL VAL ASP MET ARG SER LEU LYS ILE MET ARG GLU PHE SEQRES 16 A 276 ALA PRO VAL ILE PHE ASP ALA THR HIS SER VAL GLN MET SEQRES 17 A 276 PRO GLY GLY ALA ASN GLY LYS SER SER GLY ASP SER SER SEQRES 18 A 276 PHE ALA PRO ILE LEU ALA ARG ALA ALA ALA ALA VAL GLY SEQRES 19 A 276 ILE ASP GLY LEU PHE ALA GLU THR HIS VAL ASP PRO LYS SEQRES 20 A 276 ASN ALA LEU SER ASP GLY ALA ASN MET LEU LYS PRO ASP SEQRES 21 A 276 GLU LEU GLU GLN LEU VAL THR ASP MET LEU LYS ILE GLN SEQRES 22 A 276 ASN LEU PHE SEQRES 1 B 276 MET LYS THR SER LYS THR LYS THR PRO LYS SER VAL LEU SEQRES 2 B 276 ILE ALA GLY PRO CYS VAL ILE GLU SER LEU GLU ASN LEU SEQRES 3 B 276 ARG SER ILE ALA THR LYS LEU GLN PRO LEU ALA ASN ASN SEQRES 4 B 276 GLU ARG LEU ASP PHE TYR PHE LYS ALA SER PHE ASP LYS SEQRES 5 B 276 ALA ASN ARG THR SER LEU GLU SER TYR ARG GLY PRO GLY SEQRES 6 B 276 LEU GLU LYS GLY LEU GLU MET LEU GLN THR ILE LYS GLU SEQRES 7 B 276 GLU PHE GLY TYR LYS ILE LEU THR ASP VAL HIS GLU SER SEQRES 8 B 276 TYR GLN ALA SER VAL ALA ALA LYS VAL ALA ASP ILE LEU SEQRES 9 B 276 GLN ILE PRO ALA PHE LEU CYS ARG GLN THR ASP LEU ILE SEQRES 10 B 276 VAL GLU VAL SER GLN THR ASN ALA ILE VAL ASN ILE LYS SEQRES 11 B 276 LYS GLY GLN PHE MET ASN PRO LYS ASP MET GLN TYR SER SEQRES 12 B 276 VAL LEU LYS ALA LEU LYS THR ARG ASP LYS SER ILE GLN SEQRES 13 B 276 SER PRO THR TYR GLU THR ALA LEU LYS ASN GLY VAL TRP SEQRES 14 B 276 LEU CYS GLU ARG GLY SER SER PHE GLY TYR GLY ASN LEU SEQRES 15 B 276 VAL VAL ASP MET ARG SER LEU LYS ILE MET ARG GLU PHE SEQRES 16 B 276 ALA PRO VAL ILE PHE ASP ALA THR HIS SER VAL GLN MET SEQRES 17 B 276 PRO GLY GLY ALA ASN GLY LYS SER SER GLY ASP SER SER SEQRES 18 B 276 PHE ALA PRO ILE LEU ALA ARG ALA ALA ALA ALA VAL GLY SEQRES 19 B 276 ILE ASP GLY LEU PHE ALA GLU THR HIS VAL ASP PRO LYS SEQRES 20 B 276 ASN ALA LEU SER ASP GLY ALA ASN MET LEU LYS PRO ASP SEQRES 21 B 276 GLU LEU GLU GLN LEU VAL THR ASP MET LEU LYS ILE GLN SEQRES 22 B 276 ASN LEU PHE HET CD A 300 1 HET CD B 300 1 HETNAM CD CADMIUM ION FORMUL 3 CD 2(CD 2+) FORMUL 5 HOH *352(H2 O) HELIX 1 AA1 SER A 22 LEU A 33 1 12 HELIX 2 AA2 LEU A 33 ASN A 38 1 6 HELIX 3 AA3 GLY A 65 GLY A 81 1 17 HELIX 4 AA4 GLN A 93 LYS A 99 1 7 HELIX 5 AA5 PRO A 107 CYS A 111 5 5 HELIX 6 AA6 GLN A 113 THR A 123 1 11 HELIX 7 AA7 ASN A 136 LYS A 138 5 3 HELIX 8 AA8 ASP A 139 ASP A 152 1 14 HELIX 9 AA9 THR A 159 ASN A 166 1 8 HELIX 10 AB1 MET A 186 GLU A 194 1 9 HELIX 11 AB2 PHE A 222 GLY A 234 1 13 HELIX 12 AB3 ASP A 245 ALA A 249 5 5 HELIX 13 AB4 ASP A 252 MET A 256 5 5 HELIX 14 AB5 LYS A 258 LEU A 275 1 18 HELIX 15 AB6 SER B 22 LEU B 33 1 12 HELIX 16 AB7 LEU B 33 ASN B 38 1 6 HELIX 17 AB8 GLY B 65 GLY B 81 1 17 HELIX 18 AB9 GLU B 90 TYR B 92 5 3 HELIX 19 AC1 GLN B 93 ALA B 98 1 6 HELIX 20 AC2 PRO B 107 CYS B 111 5 5 HELIX 21 AC3 GLN B 113 GLN B 122 1 10 HELIX 22 AC4 ASN B 136 LYS B 138 5 3 HELIX 23 AC5 ASP B 139 ASP B 152 1 14 HELIX 24 AC6 THR B 159 ASN B 166 1 8 HELIX 25 AC7 MET B 186 GLU B 194 1 9 HELIX 26 AC8 SER B 221 GLY B 234 1 14 HELIX 27 AC9 ASP B 245 ALA B 249 5 5 HELIX 28 AD1 LYS B 258 ASN B 274 1 17 SHEET 1 AA1 9 SER A 11 GLY A 16 0 SHEET 2 AA1 9 LEU A 42 LYS A 47 1 O TYR A 45 N LEU A 13 SHEET 3 AA1 9 LYS A 83 ASP A 87 1 O LYS A 83 N PHE A 46 SHEET 4 AA1 9 ILE A 103 ILE A 106 1 O GLN A 105 N THR A 86 SHEET 5 AA1 9 ILE A 126 LYS A 130 1 O ILE A 126 N LEU A 104 SHEET 6 AA1 9 VAL A 168 GLU A 172 1 O TRP A 169 N VAL A 127 SHEET 7 AA1 9 VAL A 198 ASP A 201 1 O ASP A 201 N GLU A 172 SHEET 8 AA1 9 GLY A 237 GLU A 241 1 O PHE A 239 N PHE A 200 SHEET 9 AA1 9 SER A 11 GLY A 16 1 N ILE A 14 O LEU A 238 SHEET 1 AA2 2 SER A 175 SER A 176 0 SHEET 2 AA2 2 LEU A 182 VAL A 183 -1 O VAL A 183 N SER A 175 SHEET 1 AA3 9 SER B 11 GLY B 16 0 SHEET 2 AA3 9 LEU B 42 LYS B 47 1 O TYR B 45 N LEU B 13 SHEET 3 AA3 9 LYS B 83 ASP B 87 1 O LEU B 85 N PHE B 46 SHEET 4 AA3 9 ILE B 103 ILE B 106 1 O GLN B 105 N THR B 86 SHEET 5 AA3 9 ILE B 126 LYS B 130 1 O ILE B 126 N LEU B 104 SHEET 6 AA3 9 VAL B 168 GLU B 172 1 O TRP B 169 N VAL B 127 SHEET 7 AA3 9 VAL B 198 ASP B 201 1 O ILE B 199 N GLU B 172 SHEET 8 AA3 9 GLY B 237 GLU B 241 1 O PHE B 239 N PHE B 200 SHEET 9 AA3 9 SER B 11 GLY B 16 1 N ILE B 14 O LEU B 238 SHEET 1 AA4 2 SER B 175 SER B 176 0 SHEET 2 AA4 2 LEU B 182 VAL B 183 -1 O VAL B 183 N SER B 175 LINK SG CYS A 18 CD CD A 300 1555 1555 2.55 LINK NE2 HIS A 204 CD CD A 300 1555 1555 2.40 LINK OE1 GLU A 241 CD CD A 300 1555 1555 2.27 LINK OE2 GLU A 241 CD CD A 300 1555 1555 2.62 LINK CD CD A 300 O HOH A 542 1555 1555 2.31 LINK SG CYS B 18 CD CD B 300 1555 1555 2.56 LINK NE2 HIS B 204 CD CD B 300 1555 1555 2.33 LINK OE1 GLU B 241 CD CD B 300 1555 1555 2.30 LINK OE2 GLU B 241 CD CD B 300 1555 1555 2.68 LINK CD CD B 300 O HOH B 522 1555 1555 2.40 SITE 1 AC1 5 CYS A 18 HIS A 204 GLU A 241 ASP A 252 SITE 2 AC1 5 HOH A 542 SITE 1 AC2 5 CYS B 18 HIS B 204 GLU B 241 ASP B 252 SITE 2 AC2 5 HOH B 522 CRYST1 140.353 51.017 78.667 90.00 104.70 90.00 C 1 2 1 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 0.007125 0.000000 0.001869 0.00000 SCALE2 0.000000 0.019601 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013142 0.00000