HEADER TRANSFERASE 20-APR-17 5VJZ TITLE JOINT X-RAY/NEUTRON STRUCTURE OF ASPARTATE AMINOTRANSFERASE WITH TITLE 2 ALPHA-METHYL-ASPARTATE AT PH 7.5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ASPARTATE AMINOTRANSFERASE, CYTOPLASMIC; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CASPAT,CYSTEINE AMINOTRANSFERASE,CYTOPLASMIC,CYSTEINE COMPND 5 TRANSAMINASE,CCAT,GLUTAMATE OXALOACETATE TRANSAMINASE 1,TRANSAMINASE COMPND 6 A; COMPND 7 EC: 2.6.1.1,2.6.1.3; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: ASPARTATE AMINOTRANSFERASE, CYTOPLASMIC; COMPND 11 CHAIN: B; COMPND 12 SYNONYM: CASPAT,CYSTEINE AMINOTRANSFERASE,CYTOPLASMIC,CYSTEINE COMPND 13 TRANSAMINASE,CCAT,GLUTAMATE OXALOACETATE TRANSAMINASE 1,TRANSAMINASE COMPND 14 A; COMPND 15 EC: 2.6.1.1,2.6.1.3; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SUS SCROFA; SOURCE 3 ORGANISM_COMMON: PIG; SOURCE 4 ORGANISM_TAXID: 9823; SOURCE 5 GENE: GOT1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: SUS SCROFA; SOURCE 10 ORGANISM_COMMON: PIG; SOURCE 11 ORGANISM_TAXID: 9823; SOURCE 12 GENE: GOT1; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NEUTRON STRUCTURE, ASPARTATE AMINOTRANSFERASE, TRANSFERASE EXPDTA NEUTRON DIFFRACTION; X-RAY DIFFRACTION AUTHOR S.DAJNOWICZ,A.Y.KOVALEVSKY,T.C.MUESER REVDAT 3 16-MAR-22 5VJZ 1 REMARK REVDAT 2 30-JAN-19 5VJZ 1 ATOM REVDAT 1 01-NOV-17 5VJZ 0 JRNL AUTH S.DAJNOWICZ,R.C.JOHNSTON,J.M.PARKS,M.P.BLAKELEY,D.A.KEEN, JRNL AUTH 2 K.L.WEISS,O.GERLITS,A.KOVALEVSKY,T.C.MUESER JRNL TITL DIRECT VISUALIZATION OF CRITICAL HYDROGEN ATOMS IN A JRNL TITL 2 PYRIDOXAL 5'-PHOSPHATE ENZYME. JRNL REF NAT COMMUN V. 8 955 2017 JRNL REFN ESSN 2041-1723 JRNL PMID 29038582 JRNL DOI 10.1038/S41467-017-01060-Y REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NCNS 1.0.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN,MUSTYAKIMOV, REMARK 3 : AFONINE,LANGAN REMARK 3 X-RAY DATA. REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.56 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 89.2 REMARK 3 NUMBER OF REFLECTIONS : 55493 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2794 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 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) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6563 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 238 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM SIGMAA (A) : 0.14 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.24 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.17 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 3 NEUTRON DATA. REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.21 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.56 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 70.5 REMARK 3 NUMBER OF REFLECTIONS : 32558 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.234 REMARK 3 FREE R VALUE : 0.257 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1623 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.09 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 78.80 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5762 REMARK 3 BIN R VALUE (WORKING SET) : 0.2170 REMARK 3 BIN FREE R VALUE : 0.2510 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.70 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 282 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.015 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6563 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 238 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.29 REMARK 3 ESD FROM SIGMAA (A) : 0.43 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.34 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.49 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.100 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5VJZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-APR-17. REMARK 100 THE DEPOSITION ID IS D_1000227546. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-DEC-16 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 62791 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.5 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.03100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 28.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 72.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.47000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 230 REMARK 230 EXPERIMENTAL DETAILS REMARK 230 EXPERIMENT TYPE : NEUTRON DIFFRACTION REMARK 230 DATE OF DATA COLLECTION : 13-DEC-16 REMARK 230 TEMPERATURE (KELVIN) : 293.0 REMARK 230 PH : 7.50 REMARK 230 NUMBER OF CRYSTALS USED : 1 REMARK 230 REMARK 230 NEUTRON SOURCE : NUCLEAR REACTOR REMARK 230 BEAMLINE : H142 REMARK 230 WAVELENGTH OR RANGE (A) : 3.6 TO 4.7 REMARK 230 MONOCHROMATOR : NULL REMARK 230 OPTICS : NULL REMARK 230 REMARK 230 DETECTOR TYPE : IMAGE PLATE REMARK 230 DETECTOR MANUFACTURER : MARRESEARCH REMARK 230 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 230 DATA SCALING SOFTWARE : NULL REMARK 230 REMARK 230 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 230 RESOLUTION RANGE HIGH (A) : NULL REMARK 230 RESOLUTION RANGE LOW (A) : NULL REMARK 230 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 230 REMARK 230 OVERALL. REMARK 230 COMPLETENESS FOR RANGE (%) : NULL REMARK 230 DATA REDUNDANCY : NULL REMARK 230 R MERGE (I) : NULL REMARK 230 R SYM (I) : NULL REMARK 230 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 230 REMARK 230 IN THE HIGHEST RESOLUTION SHELL. REMARK 230 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 230 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 230 COMPLETENESS FOR SHELL (%) : NULL REMARK 230 DATA REDUNDANCY IN SHELL : NULL REMARK 230 R MERGE FOR SHELL (I) : NULL REMARK 230 R SYM FOR SHELL (I) : NULL REMARK 230 <I/SIGMA(I)> FOR SHELL : NULL REMARK 230 REMARK 230 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 230 SOFTWARE USED : NULL REMARK 230 STARTING MODEL: NULL REMARK 230 REMARK 230 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 40MM SODIUM ACETATE 8% PEG 6,000, PH REMARK 280 7.5, BATCH MODE, TEMPERATURE 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 27.76600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 65.22200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 62.49300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 65.22200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.76600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 62.49300 REMARK 290 SMTRY3 4 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE1 GLU B 57 D1 DOD B 501 1.36 REMARK 500 DG SER A 4 OE2 GLU B 249 1.37 REMARK 500 HG SER A 4 OE2 GLU B 249 1.37 REMARK 500 OD2 ASP B 43 D2 DOD B 502 1.41 REMARK 500 O ASP A 398 DG1 THR A 402 1.43 REMARK 500 O ASP A 398 HG1 THR A 402 1.43 REMARK 500 DH TYR A 160 O THR A 198 1.46 REMARK 500 HH TYR A 160 O THR A 198 1.46 REMARK 500 O DOD A 644 D1 DOD A 662 1.47 REMARK 500 DH TYR B 160 O THR B 198 1.47 REMARK 500 O TRP A 48 D2 DOD A 603 1.49 REMARK 500 O DOD A 685 D1 DOD B 515 1.50 REMARK 500 DG1 THR A 363 O GLY A 385 1.50 REMARK 500 HG1 THR A 363 O GLY A 385 1.50 REMARK 500 O ILE A 357 D1 DOD A 604 1.51 REMARK 500 O LYS A 258 D2 DOD A 602 1.52 REMARK 500 O DOD A 704 D1 DOD B 617 1.53 REMARK 500 DH TYR A 123 O PHE A 183 1.53 REMARK 500 HH TYR A 123 O PHE A 183 1.53 REMARK 500 DH TYR A 263 O DOD A 602 1.54 REMARK 500 DG SER A 296 O DOD A 606 1.55 REMARK 500 HG SER A 296 O DOD A 606 1.55 REMARK 500 DG SER A 255 O3P PLA A 501 1.55 REMARK 500 HG SER A 255 O3P PLA A 501 1.55 REMARK 500 O GLY A 145 HG1 THR A 149 1.56 REMARK 500 OD2 ASP B 154 D1 DOD B 506 1.57 REMARK 500 DH TYR B 70 O1P PLA A 501 1.57 REMARK 500 HH TYR B 70 O1P PLA A 501 1.57 REMARK 500 O HIS A 317 DG1 THR A 320 1.57 REMARK 500 O HIS A 317 HG1 THR A 320 1.57 REMARK 500 D1 DOD B 601 O DOD B 625 1.58 REMARK 500 OE1 GLN A 226 D1 DOD A 605 1.58 REMARK 500 DH TYR A 70 OP1 LLP B 258 1.58 REMARK 500 O TRP B 48 D1 DOD B 509 1.58 REMARK 500 OE1 GLN B 226 D1 DOD B 507 1.59 REMARK 500 D2 DOD B 552 O DOD B 599 1.59 REMARK 500 O THR B 131 D1 DOD B 508 1.60 REMARK 500 OE1 GLU B 57 O DOD B 501 2.12 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 D1 DOD A 705 O DOD B 627 3545 1.49 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 VAL A 15 92.72 -64.20 REMARK 500 ARG A 31 21.32 -78.66 REMARK 500 TYR A 160 -55.39 -137.68 REMARK 500 LYS A 165 -17.90 179.83 REMARK 500 PHE A 183 -3.27 78.79 REMARK 500 HIS A 193 137.23 -38.49 REMARK 500 SER A 230 -15.66 -150.96 REMARK 500 LEU A 262 36.19 -99.33 REMARK 500 SER A 296 -64.33 70.76 REMARK 500 PRO A 347 121.83 -35.87 REMARK 500 TRP A 350 27.78 -140.44 REMARK 500 LYS A 395 -82.37 -76.01 REMARK 500 ASN A 396 3.33 -60.70 REMARK 500 ALA A 407 -84.55 -52.98 REMARK 500 VAL A 408 -38.07 -28.50 REMARK 500 THR A 409 -71.92 -75.93 REMARK 500 LYS A 410 35.33 -87.93 REMARK 500 ILE A 411 -42.42 -135.12 REMARK 500 ASP B 27 122.22 -39.69 REMARK 500 TYR B 160 -67.13 -146.08 REMARK 500 SER B 296 -60.62 71.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 31 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PLA A 501 DBREF 5VJZ A 1 412 UNP P00503 AATC_PIG 2 413 DBREF 5VJZ B 1 412 UNP P00503 AATC_PIG 2 413 SEQADV 5VJZ ASN A 63 UNP P00503 ASP 64 CONFLICT SEQADV 5VJZ GLN A 288 UNP P00503 GLU 289 CONFLICT SEQADV 5VJZ GLN A 376 UNP P00503 GLU 377 CONFLICT SEQADV 5VJZ ASN B 63 UNP P00503 ASP 64 CONFLICT SEQADV 5VJZ GLN B 288 UNP P00503 GLU 289 CONFLICT SEQADV 5VJZ GLN B 376 UNP P00503 GLU 377 CONFLICT SEQRES 1 A 412 ALA PRO PRO SER VAL PHE ALA GLU VAL PRO GLN ALA GLN SEQRES 2 A 412 PRO VAL LEU VAL PHE LYS LEU ILE ALA ASP PHE ARG GLU SEQRES 3 A 412 ASP PRO ASP PRO ARG LYS VAL ASN LEU GLY VAL GLY ALA SEQRES 4 A 412 TYR ARG THR ASP ASP CYS GLN PRO TRP VAL LEU PRO VAL SEQRES 5 A 412 VAL ARG LYS VAL GLU GLN ARG ILE ALA ASN ASN SER SER SEQRES 6 A 412 LEU ASN HIS GLU TYR LEU PRO ILE LEU GLY LEU ALA GLU SEQRES 7 A 412 PHE ARG THR CYS ALA SER ARG LEU ALA LEU GLY ASP ASP SEQRES 8 A 412 SER PRO ALA LEU GLN GLU LYS ARG VAL GLY GLY VAL GLN SEQRES 9 A 412 SER LEU GLY GLY THR GLY ALA LEU ARG ILE GLY ALA GLU SEQRES 10 A 412 PHE LEU ALA ARG TRP TYR ASN GLY THR ASN ASN LYS ASP SEQRES 11 A 412 THR PRO VAL TYR VAL SER SER PRO THR TRP GLU ASN HIS SEQRES 12 A 412 ASN GLY VAL PHE THR THR ALA GLY PHE LYS ASP ILE ARG SEQRES 13 A 412 SER TYR ARG TYR TRP ASP THR GLU LYS ARG GLY LEU ASP SEQRES 14 A 412 LEU GLN GLY PHE LEU SER ASP LEU GLU ASN ALA PRO GLU SEQRES 15 A 412 PHE SER ILE PHE VAL LEU HIS ALA CYS ALA HIS ASN PRO SEQRES 16 A 412 THR GLY THR ASP PRO THR PRO GLU GLN TRP LYS GLN ILE SEQRES 17 A 412 ALA SER VAL MET LYS ARG ARG PHE LEU PHE PRO PHE PHE SEQRES 18 A 412 ASP SER ALA TYR GLN GLY PHE ALA SER GLY ASN LEU GLU SEQRES 19 A 412 LYS ASP ALA TRP ALA ILE ARG TYR PHE VAL SER GLU GLY SEQRES 20 A 412 PHE GLU LEU PHE CYS ALA GLN SER PHE SER LYS ASN PHE SEQRES 21 A 412 GLY LEU TYR ASN GLU ARG VAL GLY ASN LEU THR VAL VAL SEQRES 22 A 412 ALA LYS GLU PRO ASP SER ILE LEU ARG VAL LEU SER GLN SEQRES 23 A 412 MET GLN LYS ILE VAL ARG VAL THR TRP SER ASN PRO PRO SEQRES 24 A 412 ALA GLN GLY ALA ARG ILE VAL ALA ARG THR LEU SER ASP SEQRES 25 A 412 PRO GLU LEU PHE HIS GLU TRP THR GLY ASN VAL LYS THR SEQRES 26 A 412 MET ALA ASP ARG ILE LEU SER MET ARG SER GLU LEU ARG SEQRES 27 A 412 ALA ARG LEU GLU ALA LEU LYS THR PRO GLY THR TRP ASN SEQRES 28 A 412 HIS ILE THR ASP GLN ILE GLY MET PHE SER PHE THR GLY SEQRES 29 A 412 LEU ASN PRO LYS GLN VAL GLU TYR LEU ILE ASN GLN LYS SEQRES 30 A 412 HIS ILE TYR LEU LEU PRO SER GLY ARG ILE ASN MET CYS SEQRES 31 A 412 GLY LEU THR THR LYS ASN LEU ASP TYR VAL ALA THR SER SEQRES 32 A 412 ILE HIS GLU ALA VAL THR LYS ILE GLN SEQRES 1 B 412 ALA PRO PRO SER VAL PHE ALA GLU VAL PRO GLN ALA GLN SEQRES 2 B 412 PRO VAL LEU VAL PHE LYS LEU ILE ALA ASP PHE ARG GLU SEQRES 3 B 412 ASP PRO ASP PRO ARG LYS VAL ASN LEU GLY VAL GLY ALA SEQRES 4 B 412 TYR ARG THR ASP ASP CYS GLN PRO TRP VAL LEU PRO VAL SEQRES 5 B 412 VAL ARG LYS VAL GLU GLN ARG ILE ALA ASN ASN SER SER SEQRES 6 B 412 LEU ASN HIS GLU TYR LEU PRO ILE LEU GLY LEU ALA GLU SEQRES 7 B 412 PHE ARG THR CYS ALA SER ARG LEU ALA LEU GLY ASP ASP SEQRES 8 B 412 SER PRO ALA LEU GLN GLU LYS ARG VAL GLY GLY VAL GLN SEQRES 9 B 412 SER LEU GLY GLY THR GLY ALA LEU ARG ILE GLY ALA GLU SEQRES 10 B 412 PHE LEU ALA ARG TRP TYR ASN GLY THR ASN ASN LYS ASP SEQRES 11 B 412 THR PRO VAL TYR VAL SER SER PRO THR TRP GLU ASN HIS SEQRES 12 B 412 ASN GLY VAL PHE THR THR ALA GLY PHE LYS ASP ILE ARG SEQRES 13 B 412 SER TYR ARG TYR TRP ASP THR GLU LYS ARG GLY LEU ASP SEQRES 14 B 412 LEU GLN GLY PHE LEU SER ASP LEU GLU ASN ALA PRO GLU SEQRES 15 B 412 PHE SER ILE PHE VAL LEU HIS ALA CYS ALA HIS ASN PRO SEQRES 16 B 412 THR GLY THR ASP PRO THR PRO GLU GLN TRP LYS GLN ILE SEQRES 17 B 412 ALA SER VAL MET LYS ARG ARG PHE LEU PHE PRO PHE PHE SEQRES 18 B 412 ASP SER ALA TYR GLN GLY PHE ALA SER GLY ASN LEU GLU SEQRES 19 B 412 LYS ASP ALA TRP ALA ILE ARG TYR PHE VAL SER GLU GLY SEQRES 20 B 412 PHE GLU LEU PHE CYS ALA GLN SER PHE SER LLP ASN PHE SEQRES 21 B 412 GLY LEU TYR ASN GLU ARG VAL GLY ASN LEU THR VAL VAL SEQRES 22 B 412 ALA LYS GLU PRO ASP SER ILE LEU ARG VAL LEU SER GLN SEQRES 23 B 412 MET GLN LYS ILE VAL ARG VAL THR TRP SER ASN PRO PRO SEQRES 24 B 412 ALA GLN GLY ALA ARG ILE VAL ALA ARG THR LEU SER ASP SEQRES 25 B 412 PRO GLU LEU PHE HIS GLU TRP THR GLY ASN VAL LYS THR SEQRES 26 B 412 MET ALA ASP ARG ILE LEU SER MET ARG SER GLU LEU ARG SEQRES 27 B 412 ALA ARG LEU GLU ALA LEU LYS THR PRO GLY THR TRP ASN SEQRES 28 B 412 HIS ILE THR ASP GLN ILE GLY MET PHE SER PHE THR GLY SEQRES 29 B 412 LEU ASN PRO LYS GLN VAL GLU TYR LEU ILE ASN GLN LYS SEQRES 30 B 412 HIS ILE TYR LEU LEU PRO SER GLY ARG ILE ASN MET CYS SEQRES 31 B 412 GLY LEU THR THR LYS ASN LEU ASP TYR VAL ALA THR SER SEQRES 32 B 412 ILE HIS GLU ALA VAL THR LYS ILE GLN MODRES 5VJZ LLP B 258 LYS MODIFIED RESIDUE HET LLP B 258 47 HET PLA A 501 44 HETNAM LLP (2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5- HETNAM 2 LLP (PHOSPHONOOXYMETHYL)PYRIDIN-4- HETNAM 3 LLP YL]METHYLIDENEAMINO]HEXANOIC ACID HETNAM PLA 2-[(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4- HETNAM 2 PLA YLMETHYL)-AMINO]-2-METHYL-SUCCINIC ACID HETSYN LLP N'-PYRIDOXYL-LYSINE-5'-MONOPHOSPHATE HETSYN PLA N-PYRIDOXYL-2-METHYLASPARTIC ACID-5-MONOPHOSPHATE FORMUL 2 LLP C14 H22 N3 O7 P FORMUL 3 PLA C13 H19 N2 O9 P FORMUL 4 DOD *238(D2 O) HELIX 1 AA1 VAL A 15 ASP A 27 1 13 HELIX 2 AA2 LEU A 50 ASN A 62 1 13 HELIX 3 AA3 LEU A 76 GLY A 89 1 14 HELIX 4 AA4 SER A 92 GLU A 97 1 6 HELIX 5 AA5 GLY A 107 TYR A 123 1 17 HELIX 6 AA6 GLU A 141 GLY A 151 1 11 HELIX 7 AA7 ASP A 169 ALA A 180 1 12 HELIX 8 AA8 THR A 201 ARG A 215 1 15 HELIX 9 AA9 GLU A 234 ASP A 236 5 3 HELIX 10 AB1 ALA A 237 GLU A 246 1 10 HELIX 11 AB2 LEU A 262 GLU A 265 5 4 HELIX 12 AB3 GLU A 276 VAL A 293 1 18 HELIX 13 AB4 ALA A 300 SER A 311 1 12 HELIX 14 AB5 ASP A 312 LEU A 344 1 33 HELIX 15 AB6 ASN A 351 GLN A 356 1 6 HELIX 16 AB7 ASN A 366 GLN A 376 1 11 HELIX 17 AB8 CYS A 390 LEU A 392 5 3 HELIX 18 AB9 ASN A 396 GLN A 412 1 17 HELIX 19 AC1 VAL B 15 ASP B 27 1 13 HELIX 20 AC2 LEU B 50 ASN B 62 1 13 HELIX 21 AC3 LEU B 76 GLY B 89 1 14 HELIX 22 AC4 SER B 92 GLU B 97 1 6 HELIX 23 AC5 GLY B 107 TYR B 123 1 17 HELIX 24 AC6 GLU B 141 ALA B 150 1 10 HELIX 25 AC7 ASP B 169 ALA B 180 1 12 HELIX 26 AC8 THR B 201 ARG B 215 1 15 HELIX 27 AC9 ASN B 232 ALA B 237 1 6 HELIX 28 AD1 ALA B 237 GLU B 246 1 10 HELIX 29 AD2 LEU B 262 GLU B 265 5 4 HELIX 30 AD3 GLU B 276 VAL B 293 1 18 HELIX 31 AD4 ALA B 300 ASP B 312 1 13 HELIX 32 AD5 ASP B 312 LEU B 344 1 33 HELIX 33 AD6 ASN B 351 GLN B 356 1 6 HELIX 34 AD7 ASN B 366 GLN B 376 1 11 HELIX 35 AD8 CYS B 390 LEU B 392 5 3 HELIX 36 AD9 ASN B 396 ILE B 411 1 16 SHEET 1 AA1 2 VAL A 33 ASN A 34 0 SHEET 2 AA1 2 ILE A 379 TYR A 380 1 O TYR A 380 N VAL A 33 SHEET 1 AA2 7 VAL A 100 LEU A 106 0 SHEET 2 AA2 7 VAL A 267 VAL A 273 -1 O VAL A 272 N GLY A 101 SHEET 3 AA2 7 LEU A 250 SER A 255 -1 N GLN A 254 O ASN A 269 SHEET 4 AA2 7 PHE A 218 SER A 223 1 N PHE A 221 O ALA A 253 SHEET 5 AA2 7 ILE A 185 HIS A 189 1 N LEU A 188 O ASP A 222 SHEET 6 AA2 7 VAL A 133 SER A 137 1 N TYR A 134 O ILE A 185 SHEET 7 AA2 7 ILE A 155 ARG A 159 1 O ARG A 156 N VAL A 133 SHEET 1 AA3 2 TRP A 161 ASP A 162 0 SHEET 2 AA3 2 GLY A 167 LEU A 168 -1 O GLY A 167 N ASP A 162 SHEET 1 AA4 2 PHE A 360 PHE A 362 0 SHEET 2 AA4 2 ARG A 386 ASN A 388 -1 O ILE A 387 N SER A 361 SHEET 1 AA5 2 VAL B 33 ASN B 34 0 SHEET 2 AA5 2 ILE B 379 TYR B 380 1 O TYR B 380 N VAL B 33 SHEET 1 AA6 7 VAL B 100 LEU B 106 0 SHEET 2 AA6 7 VAL B 267 VAL B 273 -1 O VAL B 272 N GLY B 101 SHEET 3 AA6 7 LEU B 250 SER B 255 -1 N GLN B 254 O ASN B 269 SHEET 4 AA6 7 PHE B 218 SER B 223 1 N SER B 223 O ALA B 253 SHEET 5 AA6 7 ILE B 185 HIS B 189 1 N PHE B 186 O PHE B 220 SHEET 6 AA6 7 VAL B 133 SER B 137 1 N TYR B 134 O ILE B 185 SHEET 7 AA6 7 ILE B 155 ARG B 159 1 O ARG B 156 N VAL B 133 SHEET 1 AA7 2 TRP B 161 ASP B 162 0 SHEET 2 AA7 2 GLY B 167 LEU B 168 -1 O GLY B 167 N ASP B 162 SHEET 1 AA8 2 PHE B 360 PHE B 362 0 SHEET 2 AA8 2 ARG B 386 ASN B 388 -1 O ILE B 387 N SER B 361 LINK C SER B 257 N LLP B 258 1555 1555 1.33 LINK C LLP B 258 N ASN B 259 1555 1555 1.35 CISPEP 1 SER A 137 PRO A 138 0 -0.29 CISPEP 2 ASN A 194 PRO A 195 0 3.75 CISPEP 3 SER B 137 PRO B 138 0 1.43 CISPEP 4 ASN B 194 PRO B 195 0 3.50 SITE 1 AC1 16 GLY A 38 GLY A 107 GLY A 108 THR A 109 SITE 2 AC1 16 TRP A 140 ASN A 194 ASP A 222 TYR A 225 SITE 3 AC1 16 SER A 255 SER A 257 LYS A 258 ARG A 266 SITE 4 AC1 16 ARG A 386 TYR B 70 ARG B 292 DOD B 529 CRYST1 55.532 124.986 130.444 90.00 90.00 90.00 P 21 21 21 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.018008 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008001 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007666 0.00000