10 20 30 40 50 60 70 80 3IBQ - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSFERASE 16-JUL-09 3IBQ
TITLE CRYSTAL STRUCTURE OF PYRIDOXAL KINASE FROM LACTOBACILLUS TITLE 2 PLANTARUM IN COMPLEX WITH ATP
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRIDOXAL KINASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.1.35; COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACTOBACILLUS PLANTARUM; SOURCE 3 ORGANISM_TAXID: 1590; SOURCE 4 STRAIN: WCFS1; SOURCE 5 GENE: PDX, LP_0863; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PSGX3(BC)
KEYWDS PYRIDOXAL KINASE,ATP,PSI-II, 11208C, STRUCTURAL GENOMICS, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, NEW YORK SGX RESEARCH CENTER KEYWDS 3 FOR STRUCTURAL GENOMICS, NYSGXRC, KINASE, TRANSFERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR A.BAGARIA,D.KUMARAN,S.K.BURLEY,S.SWAMINATHAN,NEW YORK SGX AUTHOR 2 RESEARCH CENTER FOR STRUCTURAL GENOMICS (NYSGXRC)
REVDAT 1 28-JUL-09 3IBQ 0
JRNL AUTH A.BAGARIA,D.KUMARAN,S.K.BURLEY,S.SWAMINATHAN JRNL TITL CRYSTAL STRUCTURE OF PYRIDOXAL KINASE FROM JRNL TITL 2 LACTOBACILLUS PLANTARUM IN COMPLEX WITH ATP JRNL REF TO BE PUBLISHED JRNL REFN
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.46 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 19397 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) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1056 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1406 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.1840 REMARK 3 BIN FREE R VALUE SET COUNT : 95 REMARK 3 BIN FREE R VALUE : 0.2660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2037 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 169 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.03 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.165 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.152 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.099 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.470 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.919 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2108 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2898 ; 1.633 ; 1.982 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 271 ; 6.049 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 86 ;37.118 ;25.233 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 313 ;13.094 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;18.106 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 350 ; 0.117 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1581 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 947 ; 0.213 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1450 ; 0.306 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 133 ; 0.295 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.193 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 58 ; 0.193 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 24 ; 0.517 ; 0.200 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): 1391 ; 1.192 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2161 ; 1.641 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 831 ; 2.671 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 737 ; 4.032 ; 4.500 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 : 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 REMARK 3 RIDING POSITIONS
REMARK 4 REMARK 4 3IBQ COMPLIES WITH FORMAT V. 3.20, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-JUL-09. REMARK 100 THE RCSB ID CODE IS RCSB054213.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : SI(111)CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19397 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 38.460 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 11.000 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.50 REMARK 200 R MERGE FOR SHELL (I) : 0.29300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 6.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MR REMARK 200 STARTING MODEL: 3H74 REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M MGCL2, 0.1M HEPES PH 6.5, 25% REMARK 280 PEG3350, 20MM ATP , VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 298K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 66.18450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 66.18450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 32.17850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 34.78800 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 32.17850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 34.78800 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 66.18450 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 32.17850 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 34.78800 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 66.18450 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 32.17850 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 34.78800 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL
REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -53.0 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 64.35700 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 66.18450
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 MSE A -1 REMARK 465 SER A 0 REMARK 465 LEU A 1 REMARK 465 GLY A 274 REMARK 465 HIS A 275 REMARK 465 HIS A 276 REMARK 465 HIS A 277 REMARK 465 HIS A 278 REMARK 465 HIS A 279 REMARK 465 HIS A 280
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 SER A 17 -124.53 33.94 REMARK 500 VAL A 81 -63.24 -105.47 REMARK 500 LEU A 108 -28.53 -142.78 REMARK 500 ASP A 119 -166.66 -129.87 REMARK 500 ALA A 182 -125.63 58.39 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 436 DISTANCE = 5.35 ANGSTROMS REMARK 525 HOH A 446 DISTANCE = 5.04 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 MG A 282 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ATP A 281 O1B REMARK 620 2 HOH A 358 O 111.5 REMARK 620 3 HOH A 348 O 109.4 59.3 REMARK 620 4 HOH A 447 O 64.7 149.0 91.9 REMARK 620 5 HOH A 448 O 107.4 104.6 143.1 105.8 REMARK 620 6 HOH A 427 O 157.0 82.0 60.3 94.0 85.9 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 ATP A 281 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 282
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-11208C RELATED DB: TARGETDB
DBREF 3IBQ A 2 272 UNP Q88YB5 Q88YB5_LACPL 2 272
SEQADV 3IBQ MSE A -1 UNP Q88YB5 EXPRESSION TAG SEQADV 3IBQ SER A 0 UNP Q88YB5 EXPRESSION TAG SEQADV 3IBQ LEU A 1 UNP Q88YB5 EXPRESSION TAG SEQADV 3IBQ GLU A 273 UNP Q88YB5 EXPRESSION TAG SEQADV 3IBQ GLY A 274 UNP Q88YB5 EXPRESSION TAG SEQADV 3IBQ HIS A 275 UNP Q88YB5 EXPRESSION TAG SEQADV 3IBQ HIS A 276 UNP Q88YB5 EXPRESSION TAG SEQADV 3IBQ HIS A 277 UNP Q88YB5 EXPRESSION TAG SEQADV 3IBQ HIS A 278 UNP Q88YB5 EXPRESSION TAG SEQADV 3IBQ HIS A 279 UNP Q88YB5 EXPRESSION TAG SEQADV 3IBQ HIS A 280 UNP Q88YB5 EXPRESSION TAG
SEQRES 1 A 282 MSE SER LEU SER THR MSE LEU VAL ALA GLU ASP LEU SER SEQRES 2 A 282 ALA VAL GLY GLY ILE SER LEU SER SER ALA LEU PRO VAL SEQRES 3 A 282 LEU THR ALA MSE GLN TYR ASP VAL ALA ALA LEU PRO THR SEQRES 4 A 282 SER LEU LEU SER THR HIS THR SER GLY TYR GLY THR PRO SEQRES 5 A 282 ALA VAL VAL ASP LEU SER THR TRP LEU PRO GLN VAL PHE SEQRES 6 A 282 ALA HIS TRP THR ARG ALA GLN LEU HIS PHE ASP GLN ALA SEQRES 7 A 282 LEU ILE GLY TYR VAL GLY SER VAL ALA LEU CYS GLN GLN SEQRES 8 A 282 ILE THR THR TYR LEU GLU GLN GLN THR LEU SER LEU LEU SEQRES 9 A 282 VAL VAL ASP PRO VAL LEU GLY ASP LEU GLY GLN LEU TYR SEQRES 10 A 282 GLN GLY PHE ASP GLN ASP TYR VAL ALA ALA MSE ARG GLN SEQRES 11 A 282 LEU ILE GLN GLN ALA ASP VAL ILE LEU PRO ASN THR THR SEQRES 12 A 282 GLU ALA ALA LEU LEU THR GLY ALA PRO TYR GLN VAL THR SEQRES 13 A 282 PRO ASP LEU GLU VAL ILE LEU PRO ALA LEU GLN ALA GLN SEQRES 14 A 282 LEU LYS THR GLY ALA HIS ALA VAL ILE THR ASP VAL GLN SEQRES 15 A 282 ARG ALA ASP GLN ILE GLY CYS ALA TRP LEU ASP GLU ALA SEQRES 16 A 282 GLY HIS VAL GLN TYR CYS GLY ALA ARG ARG LEU PRO GLY SEQRES 17 A 282 HIS TYR ASN GLY THR GLY ASP THR LEU ALA ALA VAL ILE SEQRES 18 A 282 ALA GLY LEU LEU GLY ARG GLY TYR PRO LEU ALA PRO THR SEQRES 19 A 282 LEU ALA ARG ALA ASN GLN TRP LEU ASN MSE ALA VAL ALA SEQRES 20 A 282 GLU THR ILE ALA GLN ASN ARG THR ASP ASP ARG GLN GLY SEQRES 21 A 282 VAL ALA LEU GLY ASP LEU LEU GLN ALA ILE LEU ALA LEU SEQRES 22 A 282 ASN GLU GLY HIS HIS HIS HIS HIS HIS
MODRES 3IBQ MSE A 4 MET SELENOMETHIONINE MODRES 3IBQ MSE A 28 MET SELENOMETHIONINE MODRES 3IBQ MSE A 126 MET SELENOMETHIONINE MODRES 3IBQ MSE A 242 MET SELENOMETHIONINE
HET MSE A 4 8 HET MSE A 28 8 HET MSE A 126 8 HET MSE A 242 8 HET ATP A 281 31 HET MG A 282 1
HETNAM MSE SELENOMETHIONINE HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM MG MAGNESIUM ION
FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 2 ATP C10 H16 N5 O13 P3 FORMUL 3 MG MG 2+ FORMUL 4 HOH *169(H2 O)
HELIX 1 1 ILE A 16 MSE A 28 1 13 HELIX 2 2 THR A 57 ALA A 69 1 13 HELIX 3 3 SER A 83 GLN A 97 1 15 HELIX 4 4 ASP A 119 GLN A 131 1 13 HELIX 5 5 ASN A 139 GLY A 148 1 10 HELIX 6 6 ASP A 156 ALA A 166 1 11 HELIX 7 7 GLY A 210 ARG A 225 1 16 HELIX 8 8 PRO A 228 GLN A 250 1 23 HELIX 9 9 LEU A 261 GLU A 273 1 13
SHEET 1 A 7 VAL A 52 VAL A 53 0 SHEET 2 A 7 ASP A 31 THR A 42 -1 N LEU A 39 O VAL A 53 SHEET 3 A 7 THR A 3 VAL A 13 1 N VAL A 6 O ALA A 33 SHEET 4 A 7 GLN A 75 ILE A 78 1 O GLN A 75 N LEU A 5 SHEET 5 A 7 LEU A 101 VAL A 104 1 O VAL A 103 N ILE A 78 SHEET 6 A 7 VAL A 135 ILE A 136 1 O VAL A 135 N VAL A 104 SHEET 7 A 7 HIS A 173 ALA A 174 1 O HIS A 173 N ILE A 136 SHEET 1 B 2 GLY A 109 ASP A 110 0 SHEET 2 B 2 GLN A 113 LEU A 114 -1 O GLN A 113 N ASP A 110 SHEET 1 C 3 ILE A 176 ARG A 181 0 SHEET 2 C 3 GLN A 184 LEU A 190 -1 O ALA A 188 N ILE A 176 SHEET 3 C 3 VAL A 196 ARG A 202 -1 O GLN A 197 N TRP A 189
LINK C THR A 3 N MSE A 4 1555 1555 1.31 LINK C MSE A 4 N LEU A 5 1555 1555 1.30 LINK C ALA A 27 N MSE A 28 1555 1555 1.31 LINK C MSE A 28 N GLN A 29 1555 1555 1.32 LINK C ALA A 125 N MSE A 126 1555 1555 1.30 LINK C MSE A 126 N ARG A 127 1555 1555 1.33 LINK C ASN A 241 N MSE A 242 1555 1555 1.32 LINK C MSE A 242 N ALA A 243 1555 1555 1.32 LINK O1B ATP A 281 MG MG A 282 1555 1555 2.27 LINK MG MG A 282 O HOH A 358 1555 1555 2.21 LINK MG MG A 282 O HOH A 348 1555 1555 2.47 LINK MG MG A 282 O HOH A 447 1555 1555 2.12 LINK MG MG A 282 O HOH A 448 1555 1555 2.15 LINK MG MG A 282 O HOH A 427 1555 1555 2.19
SITE 1 AC1 15 THR A 177 ASP A 178 LEU A 204 TYR A 208 SITE 2 AC1 15 THR A 211 GLY A 212 ASN A 237 LEU A 240 SITE 3 AC1 15 ASN A 241 MG A 282 HOH A 340 HOH A 353 SITE 4 AC1 15 HOH A 358 HOH A 359 HOH A 447 SITE 1 AC2 6 ATP A 281 HOH A 348 HOH A 358 HOH A 427 SITE 2 AC2 6 HOH A 447 HOH A 448
CRYST1 64.357 69.576 132.369 90.00 90.00 90.00 C 2 2 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 0.015538 0.000000 0.000000 0.00000
SCALE2 0.000000 0.014373 0.000000 0.00000
SCALE3 0.000000 0.000000 0.007555 0.00000