HEADER TRANSFERASE 21-JAN-05 2BIE TITLE RADIATION DAMAGE OF THE SCHIFF BASE IN PHOSPHOSERINE AMINOTRANSFERASE TITLE 2 (STRUCTURE H) 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 5 24-JUL-19 2BIE 1 REMARK REVDAT 4 22-MAY-19 2BIE 1 REMARK LINK REVDAT 3 24-FEB-09 2BIE 1 VERSN REVDAT 2 08-JUN-05 2BIE 1 JRNL REVDAT 1 19-MAY-05 2BIE 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. 1.30 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) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 12.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.2 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) : 0.130 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.129 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.164 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 9361 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 192460 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.118 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.118 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.148 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 6960 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 144903 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5590 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 63 REMARK 3 SOLVENT ATOMS : 842 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 6487.5 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 4936.0 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 32 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 59520 REMARK 3 NUMBER OF RESTRAINTS : 72462 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.012 REMARK 3 ANGLE DISTANCES (A) : 0.031 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.018 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.030 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.065 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.076 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.021 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.004 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.056 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.093 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: ANISOTROPIC REFINEMENT REDUCED FREE R REMARK 3 (NO CUTOFF) BY 0.03. RESIDUES A 215, A 216, A 218, AND B 218 REMARK 3 WERE MODELLED AS ALANINES. RESIDUES A 1, A 2, B 1, B 2, B 214, REMARK 3 B215 AND B 216 WERE NOT MODELLED. REMARK 4 REMARK 4 2BIE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-JAN-05. REMARK 100 THE DEPOSITION ID IS D_1290022577. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUL-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 : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.921 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL REMARK 200 DATA SCALING SOFTWARE : HKL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 192648 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 12.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.49000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.200 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 (%): 43.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 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 71.86500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.13550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 71.86500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.13550 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 MET A 0 REMARK 465 VAL A 1 REMARK 465 LYS A 2 REMARK 465 MET B 0 REMARK 465 VAL B 1 REMARK 465 LYS B 2 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 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 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. = -3.7 DEGREES REMARK 500 GLU A 51 OE1 - CD - OE2 ANGL. DEV. = -7.6 DEGREES REMARK 500 ARG A 58 NE - CZ - NH2 ANGL. DEV. = 3.5 DEGREES REMARK 500 PHE A 136 CB - CG - CD2 ANGL. DEV. = -4.5 DEGREES REMARK 500 TYR A 191 CG - CD1 - CE1 ANGL. DEV. = 5.9 DEGREES REMARK 500 PRO A 200 C - N - CA ANGL. DEV. = 9.1 DEGREES REMARK 500 GLU A 218 O - C - N ANGL. DEV. = 10.2 DEGREES REMARK 500 ARG A 248 NE - CZ - NH2 ANGL. DEV. = -5.1 DEGREES REMARK 500 ARG A 304 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 GLU A 307 OE1 - CD - OE2 ANGL. DEV. = -8.3 DEGREES REMARK 500 ARG A 350 CD - NE - CZ ANGL. DEV. = 9.5 DEGREES REMARK 500 ARG A 350 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 ARG A 350 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG B 21 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 42 NE - CZ - NH1 ANGL. DEV. = -8.0 DEGREES REMARK 500 ARG B 42 NE - CZ - NH2 ANGL. DEV. = 7.4 DEGREES REMARK 500 ARG B 58 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG B 180 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 LYS B 210 CA - CB - CG ANGL. DEV. = 13.6 DEGREES REMARK 500 ASP B 233 CB - CG - OD2 ANGL. DEV. = -7.4 DEGREES REMARK 500 ARG B 248 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG B 248 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG B 304 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ASP B 344 CB - CG - OD2 ANGL. DEV. = -5.5 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 GLN A 219 -9.52 89.64 REMARK 500 TYR A 338 172.89 -58.13 REMARK 500 PRO B 11 170.06 -54.95 REMARK 500 ASP B 176 10.75 -142.85 REMARK 500 GLN B 219 -11.51 88.04 REMARK 500 TYR B 338 170.82 -58.37 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 A2063 DISTANCE = 5.90 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 B2095 O 88.3 REMARK 620 3 ASP A 256 OD1 92.1 91.1 REMARK 620 4 HOH A2271 O 176.5 91.2 84.4 REMARK 620 5 HOH A2278 O 92.1 178.8 87.8 88.4 REMARK 620 6 HOH B2094 O 94.2 87.1 173.4 89.2 93.9 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 B2119 O 90.1 REMARK 620 3 HOH B2122 O 89.0 94.1 REMARK 620 4 HOH A2390 O 94.1 84.9 176.8 REMARK 620 5 HOH A2391 O 88.8 175.5 90.3 90.8 REMARK 620 6 ASP A 344 OD2 174.5 92.8 86.1 90.8 88.7 REMARK 620 N 1 2 3 4 5 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 A2317 O REMARK 620 2 HOH B2345 O 94.8 REMARK 620 3 HOH A2315 O 91.3 87.4 REMARK 620 4 HOH B2333 O 90.9 170.7 99.7 REMARK 620 5 HOH B2154 O 178.1 83.8 89.9 90.3 REMARK 620 6 HOH B2344 O 84.2 84.2 170.1 89.1 94.4 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 B2306 O REMARK 620 2 HOH B2307 O 172.9 REMARK 620 3 HOH B2310 O 91.0 96.2 REMARK 620 4 ASP B 256 OD1 93.1 87.4 86.8 REMARK 620 5 HOH B2308 O 79.0 94.4 157.1 73.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1364 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 302 ND2 REMARK 620 2 HIS B 288 ND1 113.2 REMARK 620 3 VAL B 286 O 98.2 114.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1364 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 288 ND1 REMARK 620 2 TYR B 154 O 88.6 REMARK 620 3 TYR B 127 O 131.0 113.8 REMARK 620 N 1 2 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 MG 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 CL B1366 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A1361 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A1366 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP B1361 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A1367 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B1367 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: 2BI3 RELATED DB: PDB REMARK 900 RADIATION DAMAGE OF THE SCHIFF BASE IN PHOSPHOSERINE REMARK 900 AMINOTRANSFERASE (STRUCTURE D) 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: 2BIG RELATED DB: PDB REMARK 900 RADIATION DAMAGE OF THE SCHIFF BASE IN PHOSPHOSERINE REMARK 900 AMINOTRANSFERASE (STRUCTURE I) DBREF 2BIE A 0 360 UNP Q9RME2 Q9RME2 1 361 DBREF 2BIE B 0 360 UNP Q9RME2 Q9RME2 1 361 SEQRES 1 A 361 MET VAL LYS GLN VAL PHE ASN PHE ASN ALA GLY PRO SER SEQRES 2 A 361 ALA LEU PRO LYS PRO ALA LEU GLU ARG ALA GLN LYS GLU SEQRES 3 A 361 LEU LEU ASN PHE ASN ASP THR GLN MET SER VAL MET GLU SEQRES 4 A 361 LEU SER HIS ARG SER GLN SER TYR GLU GLU VAL HIS GLU SEQRES 5 A 361 GLN ALA GLN ASN LEU LEU ARG GLU LEU LEU GLN ILE PRO SEQRES 6 A 361 ASN ASP TYR GLN ILE LEU PHE LEU GLN GLY GLY ALA SER SEQRES 7 A 361 LEU GLN PHE THR MET LEU PRO MET ASN LEU LEU THR LYS SEQRES 8 A 361 GLY THR ILE GLY ASN TYR VAL LEU THR GLY SER TRP SER SEQRES 9 A 361 GLU LYS ALA LEU LYS GLU ALA LYS LEU LEU GLY GLU THR SEQRES 10 A 361 HIS ILE ALA ALA SER THR LYS ALA ASN SER TYR GLN SER SEQRES 11 A 361 ILE PRO ASP PHE SER GLU PHE GLN LEU ASN GLU ASN ASP SEQRES 12 A 361 ALA TYR LEU HIS ILE THR SER ASN ASN THR ILE TYR GLY SEQRES 13 A 361 THR GLN TYR GLN ASN PHE PRO GLU ILE ASN HIS ALA PRO SEQRES 14 A 361 LEU ILE ALA ASP MET SER SER ASP ILE LEU SER ARG PRO SEQRES 15 A 361 LEU LYS VAL ASN GLN PHE GLY MET ILE TYR ALA GLY ALA SEQRES 16 A 361 GLN LYS ASN LEU GLY PRO SER GLY VAL THR VAL VAL ILE SEQRES 17 A 361 VAL LYS LYS ASP LEU LEU ASN THR LYS VAL GLU GLN VAL SEQRES 18 A 361 PRO THR MET LEU GLN TYR ALA THR HIS ILE LYS SER ASP SEQRES 19 A 361 SER LEU TYR ASN THR PRO PRO THR PHE SER ILE TYR MET SEQRES 20 A 361 LEU ARG ASN VAL LEU ASP TRP ILE LYS ASP LEU GLY GLY SEQRES 21 A 361 ALA GLU ALA ILE ALA LYS GLN ASN GLU GLU LYS ALA LYS SEQRES 22 A 361 ILE ILE TYR ASP THR ILE ASP GLU SER ASN GLY PHE TYR SEQRES 23 A 361 VAL GLY HIS ALA GLU LYS GLY SER ARG SER LEU MET ASN SEQRES 24 A 361 VAL THR PHE ASN LEU ARG ASN GLU GLU LEU ASN GLN GLN SEQRES 25 A 361 PHE LEU ALA LYS ALA LYS GLU GLN GLY PHE VAL GLY LEU SEQRES 26 A 361 ASN GLY HIS ARG SER VAL GLY GLY CYS ARG ALA SER ILE SEQRES 27 A 361 TYR ASN ALA VAL PRO ILE ASP ALA CYS ILE ALA LEU ARG SEQRES 28 A 361 GLU LEU MET ILE GLN PHE LYS GLU ASN ALA SEQRES 1 B 361 MET VAL LYS GLN VAL PHE ASN PHE ASN ALA GLY PRO SER SEQRES 2 B 361 ALA LEU PRO LYS PRO ALA LEU GLU ARG ALA GLN LYS GLU SEQRES 3 B 361 LEU LEU ASN PHE ASN ASP THR GLN MET SER VAL MET GLU SEQRES 4 B 361 LEU SER HIS ARG SER GLN SER TYR GLU GLU VAL HIS GLU SEQRES 5 B 361 GLN ALA GLN ASN LEU LEU ARG GLU LEU LEU GLN ILE PRO SEQRES 6 B 361 ASN ASP TYR GLN ILE LEU PHE LEU GLN GLY GLY ALA SER SEQRES 7 B 361 LEU GLN PHE THR MET LEU PRO MET ASN LEU LEU THR LYS SEQRES 8 B 361 GLY THR ILE GLY ASN TYR VAL LEU THR GLY SER TRP SER SEQRES 9 B 361 GLU LYS ALA LEU LYS GLU ALA LYS LEU LEU GLY GLU THR SEQRES 10 B 361 HIS ILE ALA ALA SER THR LYS ALA ASN SER TYR GLN SER SEQRES 11 B 361 ILE PRO ASP PHE SER GLU PHE GLN LEU ASN GLU ASN ASP SEQRES 12 B 361 ALA TYR LEU HIS ILE THR SER ASN ASN THR ILE TYR GLY SEQRES 13 B 361 THR GLN TYR GLN ASN PHE PRO GLU ILE ASN HIS ALA PRO SEQRES 14 B 361 LEU ILE ALA ASP MET SER SER ASP ILE LEU SER ARG PRO SEQRES 15 B 361 LEU LYS VAL ASN GLN PHE GLY MET ILE TYR ALA GLY ALA SEQRES 16 B 361 GLN LYS ASN LEU GLY PRO SER GLY VAL THR VAL VAL ILE SEQRES 17 B 361 VAL LYS LYS ASP LEU LEU ASN THR LYS VAL GLU GLN VAL SEQRES 18 B 361 PRO THR MET LEU GLN TYR ALA THR HIS ILE LYS SER ASP SEQRES 19 B 361 SER LEU TYR ASN THR PRO PRO THR PHE SER ILE TYR MET SEQRES 20 B 361 LEU ARG ASN VAL LEU ASP TRP ILE LYS ASP LEU GLY GLY SEQRES 21 B 361 ALA GLU ALA ILE ALA LYS GLN ASN GLU GLU LYS ALA LYS SEQRES 22 B 361 ILE ILE TYR ASP THR ILE ASP GLU SER ASN GLY PHE TYR SEQRES 23 B 361 VAL GLY HIS ALA GLU LYS GLY SER ARG SER LEU MET ASN SEQRES 24 B 361 VAL THR PHE ASN LEU ARG ASN GLU GLU LEU ASN GLN GLN SEQRES 25 B 361 PHE LEU ALA LYS ALA LYS GLU GLN GLY PHE VAL GLY LEU SEQRES 26 B 361 ASN GLY HIS ARG SER VAL GLY GLY CYS ARG ALA SER ILE SEQRES 27 B 361 TYR ASN ALA VAL PRO ILE ASP ALA CYS ILE ALA LEU ARG SEQRES 28 B 361 GLU 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 PGE A1366 10 HET PEG A1367 7 HET PLP B1361 15 HET MG B1362 1 HET MG B1363 1 HET MG B1364 2 HET CL B1365 1 HET CL B1366 1 HET PEG B1367 7 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM PGE TRIETHYLENE GLYCOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 3 PLP 2(C8 H10 N O6 P) FORMUL 4 MG 5(MG 2+) FORMUL 6 CL 4(CL 1-) FORMUL 8 PGE C6 H14 O4 FORMUL 9 PEG 2(C4 H10 O3) FORMUL 17 HOH *842(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 ALA A 360 1 19 HELIX 17 17 PRO B 15 GLU B 25 1 11 HELIX 18 18 SER B 35 LEU B 39 5 5 HELIX 19 19 SER B 43 GLN B 62 1 20 HELIX 20 20 GLY B 74 LEU B 88 1 15 HELIX 21 21 GLY B 100 LEU B 112 1 13 HELIX 22 22 LYS B 123 SER B 126 5 4 HELIX 23 23 ASP B 132 PHE B 136 5 5 HELIX 24 24 LYS B 183 PHE B 187 5 5 HELIX 25 25 ASP B 211 LEU B 213 5 3 HELIX 26 26 PRO B 221 LEU B 224 5 4 HELIX 27 27 GLN B 225 SER B 232 1 8 HELIX 28 28 PRO B 240 LEU B 257 1 18 HELIX 29 29 GLY B 258 GLU B 280 1 23 HELIX 30 30 GLU B 290 SER B 293 5 4 HELIX 31 31 ASN B 305 GLN B 319 1 15 HELIX 32 32 PRO B 342 ALA B 360 1 19 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 1.31 LINK MG MG A1362 OE1 GLU B 51 1555 3545 2.04 LINK MG MG A1362 O HOH B2095 1555 3545 2.11 LINK MG MG A1362 OD1 ASP A 256 1555 1555 2.00 LINK MG MG A1362 O HOH A2271 1555 1555 2.15 LINK MG MG A1362 O HOH A2278 1555 1555 2.12 LINK MG MG A1362 O HOH B2094 1555 3545 2.08 LINK MG MG A1363 OD2 ASP B 66 1555 3545 2.02 LINK MG MG A1363 O HOH B2119 1555 3545 2.01 LINK MG MG A1363 O HOH B2122 1555 3545 2.09 LINK MG MG A1363 O HOH A2390 1555 1555 2.03 LINK MG MG A1363 O HOH A2391 1555 1555 2.11 LINK MG MG A1363 OD2 ASP A 344 1555 1555 2.04 LINK NZ LYS B 196 C4A PLP B1361 1555 1555 1.35 LINK MG MG B1362 O HOH A2317 1555 4455 2.21 LINK MG MG B1362 O HOH B2345 1555 1555 2.04 LINK MG MG B1362 O HOH A2315 1555 4455 2.01 LINK MG MG B1362 O HOH B2333 1555 1555 2.10 LINK MG MG B1362 O HOH B2154 1555 1555 2.01 LINK MG MG B1362 O HOH B2344 1555 1555 1.99 LINK MG MG B1363 O HOH B2306 1555 1555 2.45 LINK MG MG B1363 O HOH B2307 1555 1555 1.80 LINK MG MG B1363 O HOH B2310 1555 1555 2.80 LINK MG MG B1363 OD1 ASP B 256 1555 1555 2.00 LINK MG MG B1363 O HOH B2308 1555 1555 3.10 LINK MG B MG B1364 ND2BASN B 302 1555 1555 2.17 LINK MG B MG B1364 ND1BHIS B 288 1555 1555 1.79 LINK MG B MG B1364 O VAL B 286 1555 1555 2.99 LINK MG A MG B1364 ND1AHIS B 288 1555 1555 1.66 LINK MG A MG B1364 O TYR B 154 1555 1555 2.99 LINK MG A MG B1364 O TYR B 127 1555 1555 2.67 CISPEP 1 GLY A 10 PRO A 11 0 -18.83 CISPEP 2 GLY B 10 PRO B 11 0 -14.56 SITE 1 AC1 6 ASP A 256 HOH A2271 HOH A2278 GLU B 51 SITE 2 AC1 6 HOH B2094 HOH B2095 SITE 1 AC2 6 ASP A 344 HOH A2390 HOH A2391 ASP B 66 SITE 2 AC2 6 HOH B2119 HOH B2122 SITE 1 AC3 6 SER A 101 TRP A 102 ASN A 151 THR A 152 SITE 2 AC3 6 ILE A 153 HOH A2200 SITE 1 AC4 4 TRP A 102 THR A 152 ARG A 334 HOH A2013 SITE 1 AC5 6 HOH A2315 HOH A2317 HOH B2154 HOH B2333 SITE 2 AC5 6 HOH B2344 HOH B2345 SITE 1 AC6 4 ASP B 256 HOH B2306 HOH B2307 HOH B2310 SITE 1 AC7 8 TYR B 127 GLN B 128 TYR B 154 THR B 156 SITE 2 AC7 8 VAL B 286 GLY B 287 HIS B 288 ASN B 302 SITE 1 AC8 6 SER B 101 TRP B 102 ASN B 151 THR B 152 SITE 2 AC8 6 ILE B 153 HOH B2227 SITE 1 AC9 6 TRP B 102 THR B 152 ILE B 153 ARG B 334 SITE 2 AC9 6 HOH B2020 HOH B2398 SITE 1 BC1 14 GLY A 75 ALA A 76 SER A 77 TRP A 102 SITE 2 BC1 14 THR A 152 ASP A 172 SER A 174 GLN A 195 SITE 3 BC1 14 LYS A 196 HOH A2407 HOH A2408 ASN B 237 SITE 4 BC1 14 THR B 238 HOH B2293 SITE 1 BC2 1 LYS A 123 SITE 1 BC3 15 ASN A 237 THR A 238 HOH A2263 GLY B 75 SITE 2 BC3 15 ALA B 76 SER B 77 TRP B 102 THR B 152 SITE 3 BC3 15 ASP B 172 SER B 174 GLN B 195 LYS B 196 SITE 4 BC3 15 HOH B2243 HOH B2263 HOH B2431 SITE 1 BC4 5 GLN A 159 TYR A 275 ARG A 294 LEU A 296 SITE 2 BC4 5 HOH A2410 SITE 1 BC5 6 GLN B 159 GLY B 292 ARG B 294 LEU B 296 SITE 2 BC5 6 HOH B2362 HOH B2432 CRYST1 143.730 84.271 67.207 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 0.006957 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011866 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014879 0.00000