PDB Short entry for 2BI3 HEADER TRANSFERASE 20-JAN-05 2BI3 TITLE RADIATION DAMAGE OF THE SCHIFF BASE IN PHOSPHOSERINE AMINOTRANSFERASE TITLE 2 (STRUCTURE D) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOSERINE AMINOTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.6.1.52; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: PYRIDOXAL-5'-PHOSPHATE LINKED TO 196 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS ALCALOPHILUS; SOURCE 3 ORGANISM_TAXID: 1445; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PBALC-PSAT KEYWDS TRANSFERASE, AMINOTRANSFERASE, PYRIDOXAL-5'-PHOSPHATE, RADIATION KEYWDS 2 DAMAGE EXPDTA X-RAY DIFFRACTION AUTHOR A.P.DUBNOVITSKY,R.B.G.RAVELLI,A.N.POPOV,A.C.PAPAGEORGIOU REVDAT 4 22-MAY-19 2BI3 1 REMARK LINK REVDAT 3 24-FEB-09 2BI3 1 VERSN REVDAT 2 08-JUN-05 2BI3 1 JRNL REVDAT 1 19-MAY-05 2BI3 0 JRNL AUTH A.P.DUBNOVITSKY,R.B.G.RAVELLI,A.N.POPOV,A.C.PAPAGEORGIOU JRNL TITL STRAIN RELIEF AT THE ACTIVE SITE OF PHOSPHOSERINE JRNL TITL 2 AMINOTRANSFERASE INDUCED BY RADIATION DAMAGE. JRNL REF PROTEIN SCI. V. 14 1498 2005 JRNL REFN ISSN 0961-8368 JRNL PMID 15883191 JRNL DOI 10.1110/PS.051397905 REMARK 2 REMARK 2 RESOLUTION. 1.69 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.69 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.181 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.179 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 4472 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 89142 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.166 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.164 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 3412 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 67949 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5601 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 75 REMARK 3 SOLVENT ATOMS : 604 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 6278.0 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 0.00 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 22 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 25439 REMARK 3 NUMBER OF RESTRAINTS : 23526 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 ANGLE DISTANCES (A) : 0.024 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.010 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.028 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.036 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.049 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.011 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.000 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.078 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.000 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH AND HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RESIDUES A 1, A 215, A 216, A 218, B 2 REMARK 3 AND B 218 WERE MODELLED AS ALANINES. RESIDUES B 1, B 214, B 215, REMARK 3 B216 WERE NOT MODELLED. REMARK 4 REMARK 4 2BI3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-JAN-05. REMARK 100 THE DEPOSITION ID IS D_1290022540. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAY-04 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.20 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.939 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL REMARK 200 DATA SCALING SOFTWARE : HKL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 90981 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.690 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.69 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.55000 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: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 400, 200 MM MGCL2, 5% REMARK 280 GLYCEROL, 100 MM TRIS PH 8.2, PH 8.20 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 71.53050 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.88600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 71.53050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 41.88600 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: PQS 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 400 REMARK 400 COMPOUND REMARK 400 THIS ENTRY CONTAINS ONE OF NINE STRUCTURES THAT ARE REMARK 400 DESCRIBED IN THE ACCOMPANYING JOURNAL ARTICLE. IN THE REMARK 400 ARTICLE THE STRUCTURES ARE REFERRED TO BY LETTER, REMARK 400 RATHER THAN BY PDB ACCESSION CODE. THE MAPPING BETWEEN REMARK 400 LABEL AND ACCESSION CODE IS AS FOLLOWS: REMARK 400 A - 2BHX F - 2BI9 REMARK 400 B - 2BI1 G - 2BIA REMARK 400 C - 2BI2 H - 2BIE REMARK 400 D - 2BI3 I - 2BIG REMARK 400 E - 2BI5 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 VAL B 1 REMARK 465 ASN B 214 REMARK 465 THR B 215 REMARK 465 LYS B 216 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 VAL A 1 CG1 CG2 REMARK 470 LYS A 90 CG CD CE NZ REMARK 470 GLU A 140 CG CD OE1 OE2 REMARK 470 THR A 215 OG1 CG2 REMARK 470 LYS A 216 CG CD CE NZ REMARK 470 GLU A 218 CG CD OE1 OE2 REMARK 470 LYS B 2 CG CD CE NZ REMARK 470 GLU B 218 CG CD OE1 OE2 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 46 CB - CG - CD1 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG A 304 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 304 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 TYR B 46 CB - CG - CD1 ANGL. DEV. = -3.8 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 ASP A 31 18.07 59.55 REMARK 500 LEU A 213 20.83 -145.71 REMARK 500 GLN A 219 9.53 82.37 REMARK 500 ASN A 237 -169.38 -123.39 REMARK 500 TYR A 338 171.71 -55.09 REMARK 500 ALA B 120 153.31 179.09 REMARK 500 ASN B 125 31.98 -98.94 REMARK 500 GLN B 219 4.73 85.73 REMARK 500 TYR B 338 174.90 -56.29 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 B2046 DISTANCE = 6.98 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 A1362 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 51 OE1 REMARK 620 2 HOH A2188 O 90.0 REMARK 620 3 HOH B2063 O 83.4 94.3 REMARK 620 4 HOH A2187 O 88.4 178.4 85.6 REMARK 620 5 HOH A2183 O 176.6 90.8 93.3 90.8 REMARK 620 6 ASP A 256 OD1 97.8 89.7 175.8 90.4 85.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1363 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 66 OD2 REMARK 620 2 HOH A2268 O 87.9 REMARK 620 3 ASP A 344 OD2 176.5 91.3 REMARK 620 4 HOH B2180 O 90.9 92.5 85.8 REMARK 620 5 HOH B2084 O 90.4 86.8 93.0 178.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1362 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B2249 O REMARK 620 2 HOH A2205 O 83.6 REMARK 620 3 HOH B2242 O 82.6 92.9 REMARK 620 4 HOH B2252 O 82.0 91.0 163.5 REMARK 620 5 HOH B2110 O 94.4 178.0 86.3 89.2 REMARK 620 6 HOH A2207 O 173.7 95.3 103.7 91.8 86.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1363 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B2223 O REMARK 620 2 HOH B2215 O 74.0 REMARK 620 3 ASP B 256 OD1 67.3 67.0 REMARK 620 4 HOH B2221 O 159.0 98.4 91.8 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 A1362 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A1363 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1364 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1365 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B1362 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B1363 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B1364 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B1365 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A1361 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1PE A1366 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP B1361 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A1367 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A1368 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B1366 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1W23 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PHOSPHOSERINE AMINOTRANSFERASE FROM BACILLUS REMARK 900 ALCALOPHILUS REMARK 900 RELATED ID: 2BHX RELATED DB: PDB REMARK 900 RADIATION DAMAGE OF THE SCHIFF BASE IN PHOSPHOSERINE REMARK 900 AMINOTRANSFERASE (STRUCTURE A) REMARK 900 RELATED ID: 2BI1 RELATED DB: PDB REMARK 900 RADIATION DAMAGE OF THE SCHIFF BASE IN PHOSPHOSERINE REMARK 900 AMINOTRANSFERASE (STRUCTURE B) REMARK 900 RELATED ID: 2BI2 RELATED DB: PDB REMARK 900 RADIATION DAMAGE OF THE SCHIFF BASE IN PHOSPHOSERINE REMARK 900 AMINOTRANSFERASE (STRUCTURE C) REMARK 900 RELATED ID: 2BI5 RELATED DB: PDB REMARK 900 RADIATION DAMAGE OF THE SCHIFF BASE IN PHOSPHOSERINE REMARK 900 AMINOTRANSFERASE (STRUCTURE E) REMARK 900 RELATED ID: 2BI9 RELATED DB: PDB REMARK 900 RADIATION DAMAGE OF THE SCHIFF BASE IN PHOSPHOSERINE REMARK 900 AMINOTRANSFERASE (STRUCTURE F) REMARK 900 RELATED ID: 2BIA RELATED DB: PDB REMARK 900 RADIATION DAMAGE OF THE SCHIFF BASE IN PHOSPHOSERINE REMARK 900 AMINOTRANSFERASE (STRUCTURE G) REMARK 900 RELATED ID: 2BIE RELATED DB: PDB REMARK 900 RADIATION DAMAGE OF THE SCHIFF BASE IN PHOSPHOSERINE REMARK 900 AMINOTRANSFERASE (STRUCTURE H) REMARK 900 RELATED ID: 2BIG RELATED DB: PDB REMARK 900 RADIATION DAMAGE OF THE SCHIFF BASE IN PHOSPHOSERINE REMARK 900 AMINOTRANSFERASE (STRUCTURE I) REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE N-TERMINAL METHIONINE IS CLEAVED OFF IN THE MATURE REMARK 999 PROTEIN DBREF 2BI3 A 1 360 UNP Q9RME2 Q9RME2 2 361 DBREF 2BI3 B 1 360 UNP Q9RME2 Q9RME2 2 361 SEQRES 1 A 360 VAL LYS GLN VAL PHE ASN PHE ASN ALA GLY PRO SER ALA SEQRES 2 A 360 LEU PRO LYS PRO ALA LEU GLU ARG ALA GLN LYS GLU LEU SEQRES 3 A 360 LEU ASN PHE ASN ASP THR GLN MET SER VAL MET GLU LEU SEQRES 4 A 360 SER HIS ARG SER GLN SER TYR GLU GLU VAL HIS GLU GLN SEQRES 5 A 360 ALA GLN ASN LEU LEU ARG GLU LEU LEU GLN ILE PRO ASN SEQRES 6 A 360 ASP TYR GLN ILE LEU PHE LEU GLN GLY GLY ALA SER LEU SEQRES 7 A 360 GLN PHE THR MET LEU PRO MET ASN LEU LEU THR LYS GLY SEQRES 8 A 360 THR ILE GLY ASN TYR VAL LEU THR GLY SER TRP SER GLU SEQRES 9 A 360 LYS ALA LEU LYS GLU ALA LYS LEU LEU GLY GLU THR HIS SEQRES 10 A 360 ILE ALA ALA SER THR LYS ALA ASN SER TYR GLN SER ILE SEQRES 11 A 360 PRO ASP PHE SER GLU PHE GLN LEU ASN GLU ASN ASP ALA SEQRES 12 A 360 TYR LEU HIS ILE THR SER ASN ASN THR ILE TYR GLY THR SEQRES 13 A 360 GLN TYR GLN ASN PHE PRO GLU ILE ASN HIS ALA PRO LEU SEQRES 14 A 360 ILE ALA ASP MET SER SER ASP ILE LEU SER ARG PRO LEU SEQRES 15 A 360 LYS VAL ASN GLN PHE GLY MET ILE TYR ALA GLY ALA GLN SEQRES 16 A 360 LYS ASN LEU GLY PRO SER GLY VAL THR VAL VAL ILE VAL SEQRES 17 A 360 LYS LYS ASP LEU LEU ASN THR LYS VAL GLU GLN VAL PRO SEQRES 18 A 360 THR MET LEU GLN TYR ALA THR HIS ILE LYS SER ASP SER SEQRES 19 A 360 LEU TYR ASN THR PRO PRO THR PHE SER ILE TYR MET LEU SEQRES 20 A 360 ARG ASN VAL LEU ASP TRP ILE LYS ASP LEU GLY GLY ALA SEQRES 21 A 360 GLU ALA ILE ALA LYS GLN ASN GLU GLU LYS ALA LYS ILE SEQRES 22 A 360 ILE TYR ASP THR ILE ASP GLU SER ASN GLY PHE TYR VAL SEQRES 23 A 360 GLY HIS ALA GLU LYS GLY SER ARG SER LEU MET ASN VAL SEQRES 24 A 360 THR PHE ASN LEU ARG ASN GLU GLU LEU ASN GLN GLN PHE SEQRES 25 A 360 LEU ALA LYS ALA LYS GLU GLN GLY PHE VAL GLY LEU ASN SEQRES 26 A 360 GLY HIS ARG SER VAL GLY GLY CYS ARG ALA SER ILE TYR SEQRES 27 A 360 ASN ALA VAL PRO ILE ASP ALA CYS ILE ALA LEU ARG GLU SEQRES 28 A 360 LEU MET ILE GLN PHE LYS GLU ASN ALA SEQRES 1 B 360 VAL LYS GLN VAL PHE ASN PHE ASN ALA GLY PRO SER ALA SEQRES 2 B 360 LEU PRO LYS PRO ALA LEU GLU ARG ALA GLN LYS GLU LEU SEQRES 3 B 360 LEU ASN PHE ASN ASP THR GLN MET SER VAL MET GLU LEU SEQRES 4 B 360 SER HIS ARG SER GLN SER TYR GLU GLU VAL HIS GLU GLN SEQRES 5 B 360 ALA GLN ASN LEU LEU ARG GLU LEU LEU GLN ILE PRO ASN SEQRES 6 B 360 ASP TYR GLN ILE LEU PHE LEU GLN GLY GLY ALA SER LEU SEQRES 7 B 360 GLN PHE THR MET LEU PRO MET ASN LEU LEU THR LYS GLY SEQRES 8 B 360 THR ILE GLY ASN TYR VAL LEU THR GLY SER TRP SER GLU SEQRES 9 B 360 LYS ALA LEU LYS GLU ALA LYS LEU LEU GLY GLU THR HIS SEQRES 10 B 360 ILE ALA ALA SER THR LYS ALA ASN SER TYR GLN SER ILE SEQRES 11 B 360 PRO ASP PHE SER GLU PHE GLN LEU ASN GLU ASN ASP ALA SEQRES 12 B 360 TYR LEU HIS ILE THR SER ASN ASN THR ILE TYR GLY THR SEQRES 13 B 360 GLN TYR GLN ASN PHE PRO GLU ILE ASN HIS ALA PRO LEU SEQRES 14 B 360 ILE ALA ASP MET SER SER ASP ILE LEU SER ARG PRO LEU SEQRES 15 B 360 LYS VAL ASN GLN PHE GLY MET ILE TYR ALA GLY ALA GLN SEQRES 16 B 360 LYS ASN LEU GLY PRO SER GLY VAL THR VAL VAL ILE VAL SEQRES 17 B 360 LYS LYS ASP LEU LEU ASN THR LYS VAL GLU GLN VAL PRO SEQRES 18 B 360 THR MET LEU GLN TYR ALA THR HIS ILE LYS SER ASP SER SEQRES 19 B 360 LEU TYR ASN THR PRO PRO THR PHE SER ILE TYR MET LEU SEQRES 20 B 360 ARG ASN VAL LEU ASP TRP ILE LYS ASP LEU GLY GLY ALA SEQRES 21 B 360 GLU ALA ILE ALA LYS GLN ASN GLU GLU LYS ALA LYS ILE SEQRES 22 B 360 ILE TYR ASP THR ILE ASP GLU SER ASN GLY PHE TYR VAL SEQRES 23 B 360 GLY HIS ALA GLU LYS GLY SER ARG SER LEU MET ASN VAL SEQRES 24 B 360 THR PHE ASN LEU ARG ASN GLU GLU LEU ASN GLN GLN PHE SEQRES 25 B 360 LEU ALA LYS ALA LYS GLU GLN GLY PHE VAL GLY LEU ASN SEQRES 26 B 360 GLY HIS ARG SER VAL GLY GLY CYS ARG ALA SER ILE TYR SEQRES 27 B 360 ASN ALA VAL PRO ILE ASP ALA CYS ILE ALA LEU ARG GLU SEQRES 28 B 360 LEU MET ILE GLN PHE LYS GLU ASN ALA HET PLP A1361 15 HET MG A1362 1 HET MG A1363 1 HET CL A1364 1 HET CL A1365 1 HET 1PE A1366 16 HET PEG A1367 7 HET PEG A1368 7 HET PLP B1361 15 HET MG B1362 1 HET MG B1363 1 HET CL B1364 1 HET CL B1365 1 HET PEG B1366 7 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM 1PE PENTAETHYLENE GLYCOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN PLP VITAMIN B6 PHOSPHATE HETSYN 1PE PEG400 FORMUL 3 PLP 2(C8 H10 N O6 P) FORMUL 4 MG 4(MG 2+) FORMUL 6 CL 4(CL 1-) FORMUL 8 1PE C10 H22 O6 FORMUL 9 PEG 3(C4 H10 O3) FORMUL 17 HOH *604(H2 O) HELIX 1 1 PRO A 15 GLU A 25 1 11 HELIX 2 2 SER A 35 LEU A 39 5 5 HELIX 3 3 SER A 43 GLN A 62 1 20 HELIX 4 4 GLY A 74 LEU A 88 1 15 HELIX 5 5 GLY A 100 LEU A 112 1 13 HELIX 6 6 LYS A 123 SER A 126 5 4 HELIX 7 7 ASP A 132 PHE A 136 5 5 HELIX 8 8 LYS A 183 PHE A 187 5 5 HELIX 9 9 LYS A 210 ASN A 214 1 5 HELIX 10 10 PRO A 221 LEU A 224 5 4 HELIX 11 11 GLN A 225 SER A 232 1 8 HELIX 12 12 PRO A 240 LEU A 257 1 18 HELIX 13 13 GLY A 258 GLU A 280 1 23 HELIX 14 14 GLU A 290 SER A 293 5 4 HELIX 15 15 ASN A 305 GLN A 319 1 15 HELIX 16 16 PRO A 342 ASN A 359 1 18 HELIX 17 17 PRO B 15 GLU B 25 1 11 HELIX 18 18 ASN B 28 THR B 32 5 5 HELIX 19 19 SER B 35 LEU B 39 5 5 HELIX 20 20 SER B 43 GLN B 62 1 20 HELIX 21 21 GLY B 74 LEU B 88 1 15 HELIX 22 22 GLY B 100 GLY B 114 1 15 HELIX 23 23 LYS B 123 SER B 126 5 4 HELIX 24 24 ASP B 132 PHE B 136 5 5 HELIX 25 25 LYS B 183 PHE B 187 5 5 HELIX 26 26 ASP B 211 LEU B 213 5 3 HELIX 27 27 PRO B 221 LEU B 224 5 4 HELIX 28 28 GLN B 225 ASP B 233 1 9 HELIX 29 29 PRO B 240 LEU B 257 1 18 HELIX 30 30 GLY B 258 GLU B 280 1 23 HELIX 31 31 GLU B 290 SER B 293 5 4 HELIX 32 32 ASN B 305 GLN B 319 1 15 HELIX 33 33 PRO B 342 ASN B 359 1 18 SHEET 1 AA 2 PHE A 5 ASN A 6 0 SHEET 2 AA 2 PHE A 321 VAL A 322 1 N VAL A 322 O PHE A 5 SHEET 1 AB 7 TYR A 67 LEU A 72 0 SHEET 2 AB 7 THR A 204 LYS A 209 -1 O THR A 204 N LEU A 72 SHEET 3 AB 7 MET A 189 GLY A 193 -1 O ILE A 190 N ILE A 207 SHEET 4 AB 7 LEU A 169 ASP A 172 1 O ALA A 171 N TYR A 191 SHEET 5 AB 7 ASP A 142 THR A 148 1 O LEU A 145 N ILE A 170 SHEET 6 AB 7 ILE A 93 LEU A 98 1 O ILE A 93 N ALA A 143 SHEET 7 AB 7 GLU A 115 SER A 121 1 O GLU A 115 N GLY A 94 SHEET 1 AC 2 ASN A 150 ASN A 151 0 SHEET 2 AC 2 THR A 156 GLN A 157 -1 O THR A 156 N ASN A 151 SHEET 1 AD 3 VAL A 286 GLY A 287 0 SHEET 2 AD 3 ASN A 298 ASN A 302 -1 O ASN A 302 N VAL A 286 SHEET 3 AD 3 CYS A 333 SER A 336 -1 O CYS A 333 N PHE A 301 SHEET 1 BA 2 PHE B 5 ASN B 6 0 SHEET 2 BA 2 PHE B 321 VAL B 322 1 N VAL B 322 O PHE B 5 SHEET 1 BB 7 TYR B 67 LEU B 72 0 SHEET 2 BB 7 THR B 204 LYS B 209 -1 O THR B 204 N LEU B 72 SHEET 3 BB 7 MET B 189 GLY B 193 -1 O ILE B 190 N ILE B 207 SHEET 4 BB 7 LEU B 169 ASP B 172 1 O ALA B 171 N TYR B 191 SHEET 5 BB 7 ASP B 142 THR B 148 1 O LEU B 145 N ILE B 170 SHEET 6 BB 7 ILE B 93 LEU B 98 1 O ILE B 93 N ALA B 143 SHEET 7 BB 7 GLU B 115 SER B 121 1 O GLU B 115 N GLY B 94 SHEET 1 BC 2 ASN B 150 ASN B 151 0 SHEET 2 BC 2 THR B 156 GLN B 157 -1 O THR B 156 N ASN B 151 SHEET 1 BD 3 VAL B 286 GLY B 287 0 SHEET 2 BD 3 ASN B 298 ASN B 302 -1 O ASN B 302 N VAL B 286 SHEET 3 BD 3 CYS B 333 SER B 336 -1 O CYS B 333 N PHE B 301 LINK NZ LYS A 196 C4A PLP A1361 1555 1555 1.43 LINK MG MG A1362 OE1 GLU B 51 1555 3545 2.41 LINK MG MG A1362 O HOH A2188 1555 1555 2.05 LINK MG MG A1362 O HOH B2063 1555 3545 2.14 LINK MG MG A1362 O HOH A2187 1555 1555 2.14 LINK MG MG A1362 O HOH A2183 1555 1555 2.18 LINK MG MG A1362 OD1 ASP A 256 1555 1555 1.97 LINK MG MG A1363 OD2 ASP B 66 1555 3545 2.12 LINK MG MG A1363 O HOH A2268 1555 1555 2.15 LINK MG MG A1363 OD2 ASP A 344 1555 1555 2.04 LINK MG MG A1363 O HOH B2180 1555 3545 2.10 LINK MG MG A1363 O HOH B2084 1555 3545 2.07 LINK NZ LYS B 196 C4A PLP B1361 1555 1555 1.42 LINK MG MG B1362 O HOH B2249 1555 1555 2.32 LINK MG MG B1362 O HOH A2205 1555 4455 2.14 LINK MG MG B1362 O HOH B2242 1555 1555 2.30 LINK MG MG B1362 O HOH B2252 1555 1555 2.09 LINK MG MG B1362 O HOH B2110 1555 1555 2.14 LINK MG MG B1362 O HOH A2207 1555 4455 2.06 LINK MG MG B1363 O HOH B2223 1555 1555 2.85 LINK MG MG B1363 O HOH B2215 1555 1555 2.57 LINK MG MG B1363 OD1 ASP B 256 1555 1555 2.57 LINK MG MG B1363 O HOH B2221 1555 1555 2.50 CISPEP 1 GLY A 10 PRO A 11 0 -13.38 CISPEP 2 GLY B 10 PRO B 11 0 -7.69 SITE 1 AC1 6 ASP A 256 HOH A2183 HOH A2187 HOH A2188 SITE 2 AC1 6 GLU B 51 HOH B2063 SITE 1 AC2 5 ASP A 344 HOH A2268 ASP B 66 HOH B2084 SITE 2 AC2 5 HOH B2180 SITE 1 AC3 7 SER A 101 TRP A 102 ASN A 151 THR A 152 SITE 2 AC3 7 ILE A 153 TYR A 154 HOH A2091 SITE 1 AC4 4 TRP A 102 THR A 152 ARG A 334 HOH A2153 SITE 1 AC5 6 HOH A2205 HOH A2207 HOH B2110 HOH B2242 SITE 2 AC5 6 HOH B2249 HOH B2252 SITE 1 AC6 4 ASP B 256 HOH B2215 HOH B2221 HOH B2223 SITE 1 AC7 6 SER B 101 TRP B 102 ASN B 151 THR B 152 SITE 2 AC7 6 ILE B 153 HOH B2150 SITE 1 AC8 5 TRP B 102 ILE B 153 ARG B 334 HOH B2014 SITE 2 AC8 5 HOH B2297 SITE 1 AC9 14 GLY A 75 ALA A 76 SER A 77 TRP A 102 SITE 2 AC9 14 THR A 152 ASP A 172 SER A 174 GLN A 195 SITE 3 AC9 14 LYS A 196 HOH A2277 HOH A2278 HOH A2279 SITE 4 AC9 14 ASN B 237 THR B 238 SITE 1 BC1 7 ASP A 279 LYS A 291 HOH A2280 HOH A2283 SITE 2 BC1 7 GLU B 269 ILE B 343 HOH B2238 SITE 1 BC2 15 ASN A 237 THR A 238 HOH A2174 GLY B 75 SITE 2 BC2 15 ALA B 76 SER B 77 PHE B 80 TRP B 102 SITE 3 BC2 15 THR B 152 ASP B 172 SER B 174 GLN B 195 SITE 4 BC2 15 LYS B 196 HOH B2319 HOH B2320 SITE 1 BC3 5 GLN A 159 LYS A 291 ARG A 294 LEU A 296 SITE 2 BC3 5 HOH A2284 SITE 1 BC4 2 GLU A 104 LYS A 123 SITE 1 BC5 6 GLN B 159 TYR B 275 LYS B 291 GLY B 292 SITE 2 BC5 6 ARG B 294 LEU B 296 CRYST1 143.061 83.772 66.719 90.00 90.00 90.00 P 21 21 2 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 0.006990 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011937 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014988 0.00000