PDB Short entry for 5A19 HEADER TRANSFERASE 28-APR-15 5A19 TITLE THE STRUCTURE OF MAT2A IN COMPLEX WITH PPNP. COMPND MOL_ID: 1; COMPND 2 MOLECULE: S-ADENOSYLMETHIONINE SYNTHASE ISOFORM TYPE-2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ADOMET SYNTHASE 2, METHIONINE ADENOSYLTRANSFERASE 2, MAT COMPND 5 MAT2, METHIONINE ADENOSYLTRANSFERASE II, MAT-II, METHIONINE COMPND 6 ADENOSYLTRANSFERASE 2A; COMPND 7 EC: 2.5.1.6; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PNIC KEYWDS TRANSFERASE, METHIONINE ADENOSYLTRANSFERASE, CELL GROWTH, LIVER KEYWDS 2 CANCER, METHYLATION. EXPDTA X-RAY DIFFRACTION AUTHOR B.MURRAY,S.V.ANTONYUK,A.MARINA,S.C.LU,J.M.MATO,S.S.HASNAIN,A.L.ROJAS REVDAT 2 09-MAR-16 5A19 1 JRNL REVDAT 1 17-FEB-16 5A19 0 JRNL AUTH B.MURRAY,S.V.ANTONYUK,A.MARINA,S.C.LU,J.M.MATO,S.S.HASNAIN, JRNL AUTH 2 A.L.ROJAS JRNL TITL CRYSTALLOGRAPHY CAPTURES CATALYTIC STEPS IN HUMAN JRNL TITL 2 METHIONINE ADENOSYLTRANSFERASE ENZYMES. JRNL REF PROC.NATL.ACAD.SCI.USA V. 113 2104 2016 JRNL REFN ISSN 0027-8424 JRNL PMID 26858410 JRNL DOI 10.1073/PNAS.1510959113 REMARK 2 REMARK 2 RESOLUTION. 2.34 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU, REMARK 3 STEINER,NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.34 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 57.71 REMARK 3 DATA CUTOFF (SIGMA(F)) : NONE REMARK 3 COMPLETENESS FOR RANGE (%) : 99.80 REMARK 3 NUMBER OF REFLECTIONS : 15301 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) : 0.16549 REMARK 3 R VALUE (WORKING SET) : 0.16344 REMARK 3 FREE R VALUE : 0.20446 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.0 REMARK 3 FREE R VALUE TEST SET COUNT : 805 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) : 2.340 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.401 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1111 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.83 REMARK 3 BIN R VALUE (WORKING SET) : 0.179 REMARK 3 BIN FREE R VALUE SET COUNT : 62 REMARK 3 BIN FREE R VALUE : 0.195 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2868 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 60 REMARK 3 SOLVENT ATOMS : 145 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.141 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.05 REMARK 3 B22 (A**2) : -0.06 REMARK 3 B33 (A**2) : 0.01 REMARK 3 B12 (A**2) : 0.00 REMARK 3 B13 (A**2) : 0.00 REMARK 3 B23 (A**2) : 0.00 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.393 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.218 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.138 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.690 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.927 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2976 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2882 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4010 ; 1.276 ; 1.978 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6643 ; 0.885 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 367 ; 6.406 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 128 ;34.620 ;23.906 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 509 ;12.797 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 19 ;21.248 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 441 ; 0.071 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3298 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 647 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1474 ; 1.040 ; 2.718 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1473 ; 1.038 ; 2.718 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1839 ; 1.726 ; 4.071 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1840 ; 1.725 ; 4.073 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1502 ; 1.035 ; 2.907 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1502 ; 1.035 ; 2.907 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2172 ; 1.674 ; 4.281 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3235 ; 3.591 ;21.511 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3189 ; 3.349 ;21.375 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 RIDING REMARK 3 POSITIONS. U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 5A19 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-FEB-16. REMARK 100 THE PDBE ID CODE IS EBI-63712. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-AUG-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : SI111 REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL (PILATUS 2M) REMARK 200 DETECTOR MANUFACTURER : DECTRIS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16225 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.33 REMARK 200 RESOLUTION RANGE LOW (A) : 74.04 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NONE REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 13.0 REMARK 200 R MERGE (I) : 0.13 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 20.70 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.34 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 13.7 REMARK 200 R MERGE FOR SHELL (I) : 0.60 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.70 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2P02 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES PH 7.5, 30 % PEG REMARK 280 600 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 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+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 33.11000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 47.74500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 58.85000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.11000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 47.74500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 58.85000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.11000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 47.74500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 58.85000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.11000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 47.74500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 58.85000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26890 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.2 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 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2104 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2144 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ASN A 2 REMARK 465 GLY A 3 REMARK 465 GLN A 4 REMARK 465 LEU A 5 REMARK 465 ASN A 6 REMARK 465 GLY A 7 REMARK 465 PHE A 8 REMARK 465 HIS A 9 REMARK 465 GLU A 10 REMARK 465 ALA A 11 REMARK 465 PHE A 12 REMARK 465 ILE A 13 REMARK 465 GLU A 14 REMARK 465 GLU A 15 REMARK 465 ASP A 116 REMARK 465 ILE A 117 REMARK 465 ALA A 118 REMARK 465 GLN A 119 REMARK 465 GLY A 120 REMARK 465 VAL A 121 REMARK 465 HIS A 122 REMARK 465 LEU A 123 REMARK 465 ASP A 124 REMARK 465 ARG A 125 REMARK 465 ASN A 126 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 THR A 62 113.58 -37.59 REMARK 500 VAL A 226 -66.43 -103.03 REMARK 500 PHE A 250 61.75 -160.48 REMARK 500 ASP A 258 119.24 -160.86 REMARK 500 THR A 270 -100.36 -120.33 REMARK 500 ASP A 383 8.73 59.16 REMARK 500 REMARK 500 REMARK: NULL 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 K A 410 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 258 OD1 REMARK 620 2 HOH A2012 O 118.6 REMARK 620 3 HOH A2013 O 66.6 52.0 REMARK 620 4 HOH A2143 O 89.1 65.6 61.3 REMARK 620 5 ALA A 259 O 73.0 67.9 51.4 112.1 REMARK 620 6 GLU A 57 OE2 173.4 58.1 110.0 94.0 100.4 REMARK 620 7 HOH A2030 O 131.7 101.8 142.3 84.3 152.1 54.4 REMARK 620 8 HOH A2103 O 80.5 146.6 138.0 146.3 95.4 99.8 79.3 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 409 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 31 OD2 REMARK 620 2 PPK A 403 O1G 76.6 REMARK 620 3 PPK A 403 O2A 84.6 88.9 REMARK 620 4 HOH A2012 O 89.7 160.9 103.2 REMARK 620 5 HOH A2013 O 82.0 79.7 164.1 85.3 REMARK 620 6 HOH A2143 O 165.4 91.7 104.0 99.4 87.5 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 PEG A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PPK A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG4 A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 410 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5A1G RELATED DB: PDB REMARK 900 THE STRUCTURE OF HUMAN MAT2A IN COMPLEX WITH S- REMARK 900 ADENOSYLETHIONINE AND PPNP. REMARK 900 RELATED ID: 5A1I RELATED DB: PDB REMARK 900 THE STRUCTURE OF HUMAB MAT2A IN COMPLEX WITH SAME, REMARK 900 ADENOSINE, METHIONINE AND PPNP. DBREF 5A19 A 1 395 UNP P31153 METK2_HUMAN 1 395 SEQRES 1 A 395 MET ASN GLY GLN LEU ASN GLY PHE HIS GLU ALA PHE ILE SEQRES 2 A 395 GLU GLU GLY THR PHE LEU PHE THR SER GLU SER VAL GLY SEQRES 3 A 395 GLU GLY HIS PRO ASP LYS ILE CYS ASP GLN ILE SER ASP SEQRES 4 A 395 ALA VAL LEU ASP ALA HIS LEU GLN GLN ASP PRO ASP ALA SEQRES 5 A 395 LYS VAL ALA CYS GLU THR VAL ALA LYS THR GLY MET ILE SEQRES 6 A 395 LEU LEU ALA GLY GLU ILE THR SER ARG ALA ALA VAL ASP SEQRES 7 A 395 TYR GLN LYS VAL VAL ARG GLU ALA VAL LYS HIS ILE GLY SEQRES 8 A 395 TYR ASP ASP SER SER LYS GLY PHE ASP TYR LYS THR CYS SEQRES 9 A 395 ASN VAL LEU VAL ALA LEU GLU GLN GLN SER PRO ASP ILE SEQRES 10 A 395 ALA GLN GLY VAL HIS LEU ASP ARG ASN GLU GLU ASP ILE SEQRES 11 A 395 GLY ALA GLY ASP GLN GLY LEU MET PHE GLY TYR ALA THR SEQRES 12 A 395 ASP GLU THR GLU GLU CYS MET PRO LEU THR ILE VAL LEU SEQRES 13 A 395 ALA HIS LYS LEU ASN ALA LYS LEU ALA GLU LEU ARG ARG SEQRES 14 A 395 ASN GLY THR LEU PRO TRP LEU ARG PRO ASP SER LYS THR SEQRES 15 A 395 GLN VAL THR VAL GLN TYR MET GLN ASP ARG GLY ALA VAL SEQRES 16 A 395 LEU PRO ILE ARG VAL HIS THR ILE VAL ILE SER VAL GLN SEQRES 17 A 395 HIS ASP GLU GLU VAL CYS LEU ASP GLU MET ARG ASP ALA SEQRES 18 A 395 LEU LYS GLU LYS VAL ILE LYS ALA VAL VAL PRO ALA LYS SEQRES 19 A 395 TYR LEU ASP GLU ASP THR ILE TYR HIS LEU GLN PRO SER SEQRES 20 A 395 GLY ARG PHE VAL ILE GLY GLY PRO GLN GLY ASP ALA GLY SEQRES 21 A 395 LEU THR GLY ARG LYS ILE ILE VAL ASP THR TYR GLY GLY SEQRES 22 A 395 TRP GLY ALA HIS GLY GLY GLY ALA PHE SER GLY LYS ASP SEQRES 23 A 395 TYR THR LYS VAL ASP ARG SER ALA ALA TYR ALA ALA ARG SEQRES 24 A 395 TRP VAL ALA LYS SER LEU VAL LYS GLY GLY LEU CYS ARG SEQRES 25 A 395 ARG VAL LEU VAL GLN VAL SER TYR ALA ILE GLY VAL SER SEQRES 26 A 395 HIS PRO LEU SER ILE SER ILE PHE HIS TYR GLY THR SER SEQRES 27 A 395 GLN LYS SER GLU ARG GLU LEU LEU GLU ILE VAL LYS LYS SEQRES 28 A 395 ASN PHE ASP LEU ARG PRO GLY VAL ILE VAL ARG ASP LEU SEQRES 29 A 395 ASP LEU LYS LYS PRO ILE TYR GLN ARG THR ALA ALA TYR SEQRES 30 A 395 GLY HIS PHE GLY ARG ASP SER PHE PRO TRP GLU VAL PRO SEQRES 31 A 395 LYS LYS LEU LYS TYR HET PEG A 400 7 HET PEG A 401 7 HET PEG A 402 7 HET PPK A 403 13 HET EDO A 404 4 HET PG4 A 407 13 HET PEG A 408 7 HET MG A 409 1 HET K A 410 1 HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM EDO 1,2-ETHANEDIOL HETNAM K POTASSIUM ION HETNAM PPK (DIPHOSPHONO)AMINOPHOSPHONIC ACID HETNAM MG MAGNESIUM ION HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN EDO ETHYLENE GLYCOL FORMUL 2 PG4 C8 H18 O5 FORMUL 3 EDO C2 H6 O2 FORMUL 4 PPK H6 N O9 P3 FORMUL 5 MG MG 2+ FORMUL 6 PEG 4(C4 H10 O3) FORMUL 7 K K 1+ FORMUL 8 HOH *145(H2 O) HELIX 1 1 HIS A 29 ASP A 49 1 21 HELIX 2 2 ASP A 78 GLY A 91 1 14 HELIX 3 3 SER A 95 GLY A 98 5 4 HELIX 4 4 PRO A 151 ASN A 170 1 20 HELIX 5 5 CYS A 214 LYS A 225 1 12 HELIX 6 6 VAL A 226 VAL A 231 1 6 HELIX 7 7 PRO A 232 LEU A 236 5 5 HELIX 8 8 GLY A 253 ASP A 258 1 6 HELIX 9 9 LYS A 289 GLY A 308 1 20 HELIX 10 10 SER A 341 PHE A 353 1 13 HELIX 11 11 ARG A 356 ASP A 365 1 10 HELIX 12 12 TYR A 371 ALA A 375 5 5 HELIX 13 13 PHE A 385 VAL A 389 5 5 SHEET 1 AA 4 THR A 17 VAL A 25 0 SHEET 2 AA 4 LEU A 176 ASP A 191 -1 O THR A 182 N SER A 24 SHEET 3 AA 4 ALA A 194 HIS A 209 -1 O ALA A 194 N ASP A 191 SHEET 4 AA 4 ILE A 241 LEU A 244 1 O ILE A 241 N ILE A 203 SHEET 1 AB 4 ASN A 105 GLN A 113 0 SHEET 2 AB 4 MET A 64 THR A 72 1 O ILE A 65 N LEU A 107 SHEET 3 AB 4 LYS A 53 LYS A 61 -1 O LYS A 53 N THR A 72 SHEET 4 AB 4 GLY A 260 LEU A 261 -1 O GLY A 260 N ALA A 60 SHEET 1 AC 2 ASP A 93 ASP A 94 0 SHEET 2 AC 2 PHE A 99 ASP A 100 -1 O PHE A 99 N ASP A 94 SHEET 1 AD 3 GLY A 136 THR A 143 0 SHEET 2 AD 3 ARG A 313 TYR A 320 -1 O VAL A 314 N ALA A 142 SHEET 3 AD 3 SER A 329 PHE A 333 -1 O SER A 329 N SER A 319 LINK O1G PPK A 403 MG MG A 409 1555 1555 2.15 LINK O2A PPK A 403 MG MG A 409 1555 1555 2.18 LINK MG MG A 409 O HOH A2143 1555 1555 2.27 LINK MG MG A 409 O HOH A2012 1555 1555 2.16 LINK MG MG A 409 OD2 ASP A 31 1555 1555 2.31 LINK MG MG A 409 O HOH A2013 1555 1555 2.29 LINK K K A 410 O HOH A2030 1555 2555 3.23 LINK K K A 410 O HOH A2103 1555 1555 2.74 LINK K K A 410 OE2 GLU A 57 1555 2555 2.87 LINK K K A 410 O ALA A 259 1555 1555 3.01 LINK K K A 410 O HOH A2143 1555 1555 2.65 LINK K K A 410 O HOH A2013 1555 1555 3.41 LINK K K A 410 O HOH A2012 1555 1555 3.46 LINK K K A 410 OD1 ASP A 258 1555 1555 2.80 SITE 1 AC1 3 ASP A 78 GLN A 112 SER A 114 SITE 1 AC2 3 HIS A 326 PRO A 327 LEU A 328 SITE 1 AC3 1 HIS A 158 SITE 1 AC4 17 GLU A 23 HIS A 29 ASP A 31 ASP A 134 SITE 2 AC4 17 LYS A 181 ASP A 258 ARG A 264 LYS A 265 SITE 3 AC4 17 GLY A 280 ALA A 281 LYS A 285 ASP A 291 SITE 4 AC4 17 MG A 409 HOH A2005 HOH A2013 HOH A2102 SITE 5 AC4 17 HOH A2143 SITE 1 AC5 6 GLN A 36 HIS A 89 GLU A 238 GLN A 372 SITE 2 AC5 6 ARG A 373 TYR A 377 SITE 1 AC6 4 GLN A 190 ARG A 313 PHE A 333 HOH A2145 SITE 1 AC7 5 ASP A 31 PPK A 403 HOH A2012 HOH A2013 SITE 2 AC7 5 HOH A2143 SITE 1 AC8 5 GLU A 57 ASP A 258 ALA A 259 HOH A2103 SITE 2 AC8 5 HOH A2143 CRYST1 66.220 95.490 117.700 90.00 90.00 90.00 I 2 2 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 0.015101 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010472 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008496 0.00000