HEADER LIGASE 07-SEP-04 1XDN TITLE HIGH RESOLUTION CRYSTAL STRUCTURE OF AN EDITOSOME ENZYME FROM TITLE 2 TRYPANOSOMA BRUCEI: RNA EDITING LIGASE 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA EDITING LIGASE MP52; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ADENYLATION DOMAIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI; SOURCE 3 ORGANISM_TAXID: 5691; SOURCE 4 GENE: MP52; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21GOLD DE3; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PSKB3 KEYWDS RNA EDITING, LIGASE, TRYPANOSOMA BRUCEI EXPDTA X-RAY DIFFRACTION AUTHOR J.DENG,A.SCHNAUFER,R.SALAVATI,K.D.STUART,W.G.HOL REVDAT 4 16-OCT-24 1XDN 1 REMARK SEQADV LINK REVDAT 3 10-SEP-14 1XDN 1 JRNL VERSN REVDAT 2 24-FEB-09 1XDN 1 VERSN REVDAT 1 07-DEC-04 1XDN 0 JRNL AUTH J.DENG,A.SCHNAUFER,R.SALAVATI,K.D.STUART,W.G.HOL JRNL TITL HIGH RESOLUTION CRYSTAL STRUCTURE OF A KEY EDITOSOME ENZYME JRNL TITL 2 FROM TRYPANOSOMA BRUCEI: RNA EDITING LIGASE 1. JRNL REF J.MOL.BIOL. V. 343 601 2004 JRNL REFN ISSN 0022-2836 JRNL PMID 15465048 JRNL DOI 10.1016/J.JMB.2004.08.041 REMARK 2 REMARK 2 RESOLUTION. 1.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : 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) : 1.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 78835 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) : 0.129 REMARK 3 R VALUE (WORKING SET) : 0.128 REMARK 3 FREE R VALUE : 0.148 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4149 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) : 1.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.23 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4798 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1170 REMARK 3 BIN FREE R VALUE SET COUNT : 260 REMARK 3 BIN FREE R VALUE : 0.1310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2119 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 440 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 7.29 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 9.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.22000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : 0.28000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.12000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.034 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.033 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.017 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.349 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.972 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2206 ; 0.010 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1976 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2993 ; 1.420 ; 1.978 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4606 ; 0.784 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 264 ; 5.763 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 320 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2428 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 457 ; 0.017 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 423 ; 0.220 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2349 ; 0.250 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1304 ; 0.084 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 304 ; 0.169 ; 0.200 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): 11 ; 0.119 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 38 ; 0.217 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 36 ; 0.177 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1319 ; 1.192 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2128 ; 1.915 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 887 ; 2.829 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 865 ; 4.258 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 REMARK 4 REMARK 4 1XDN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-SEP-04. REMARK 100 THE DEPOSITION ID IS D_1000030242. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-03 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 : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97885, 0.97899, 0.96112 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 95711 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 86.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : 0.06400 REMARK 200 FOR THE DATA SET : 33.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 86.8 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.06400 REMARK 200 R SYM FOR SHELL (I) : 0.06400 REMARK 200 FOR SHELL : 33.80 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, MAGNESIUM CHLORIDE, TRIS, REMARK 280 ATP, PH 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 29.28950 REMARK 290 SMTRY3 2 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 GLY A 48 REMARK 465 HIS A 49 REMARK 465 MET A 50 REMARK 465 ASP A 51 REMARK 465 LYS A 317 REMARK 465 HIS A 318 REMARK 465 PRO A 319 REMARK 465 GLY A 320 REMARK 465 LYS A 321 REMARK 465 GLN A 322 REMARK 465 LYS A 323 REMARK 465 GLU A 324 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 278 CD OE1 OE2 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 A 278 O HOH A 677 2.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 MSE A 314 SE MSE A 314 CE 2.364 REMARK 500 REMARK 500 REMARK: NULL 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 MSE A 314 CB - CG - SE ANGL. DEV. = -23.5 DEGREES REMARK 500 MSE A 314 CG - SE - CE ANGL. DEV. = -43.0 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 TYR A 165 96.21 -160.96 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 MG A 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ATP A 501 O1G REMARK 620 2 ATP A 501 O2B 86.6 REMARK 620 3 HOH A 514 O 89.5 173.3 REMARK 620 4 HOH A 520 O 96.9 90.2 84.9 REMARK 620 5 HOH A 528 O 177.6 94.7 89.4 85.1 REMARK 620 6 HOH A 530 O 90.8 95.6 89.9 170.6 87.1 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 MG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP A 501 DBREF 1XDN A 51 324 GB 11067037 AAG27062 51 324 SEQADV 1XDN GLY A 48 GB 11067037 CLONING ARTIFACT SEQADV 1XDN HIS A 49 GB 11067037 CLONING ARTIFACT SEQADV 1XDN MET A 50 GB 11067037 CLONING ARTIFACT SEQADV 1XDN MSE A 115 GB 11067037 MET 115 MODIFIED RESIDUE SEQADV 1XDN MSE A 263 GB 11067037 MET 263 MODIFIED RESIDUE SEQADV 1XDN MSE A 314 GB 11067037 MET 314 MODIFIED RESIDUE SEQRES 1 A 277 GLY HIS MET ASP GLN SER ASP PHE SER PRO TYR ILE GLU SEQRES 2 A 277 ILE ASP LEU PRO SER GLU SER ARG ILE GLN SER LEU HIS SEQRES 3 A 277 LYS SER GLY LEU ALA ALA GLN GLU TRP VAL ALA CYS GLU SEQRES 4 A 277 LYS VAL HIS GLY THR ASN PHE GLY ILE TYR LEU ILE ASN SEQRES 5 A 277 GLN GLY ASP HIS GLU VAL VAL ARG PHE ALA LYS ARG SER SEQRES 6 A 277 GLY ILE MSE ASP PRO ASN GLU ASN PHE PHE GLY TYR HIS SEQRES 7 A 277 ILE LEU ILE ASP GLU PHE THR ALA GLN ILE ARG ILE LEU SEQRES 8 A 277 ASN ASP LEU LEU LYS GLN LYS TYR GLY LEU SER ARG VAL SEQRES 9 A 277 GLY ARG LEU VAL LEU ASN GLY GLU LEU PHE GLY ALA LYS SEQRES 10 A 277 TYR LYS HIS PRO LEU VAL PRO LYS SER GLU LYS TRP CYS SEQRES 11 A 277 THR LEU PRO ASN GLY LYS LYS PHE PRO ILE ALA GLY VAL SEQRES 12 A 277 GLN ILE GLN ARG GLU PRO PHE PRO GLN TYR SER PRO GLU SEQRES 13 A 277 LEU HIS PHE PHE ALA PHE ASP ILE LYS TYR SER VAL SER SEQRES 14 A 277 GLY ALA GLU GLU ASP PHE VAL LEU LEU GLY TYR ASP GLU SEQRES 15 A 277 PHE VAL GLU PHE SER SER LYS VAL PRO ASN LEU LEU TYR SEQRES 16 A 277 ALA ARG ALA LEU VAL ARG GLY THR LEU ASP GLU CYS LEU SEQRES 17 A 277 ALA PHE ASP VAL GLU ASN PHE MSE THR PRO LEU PRO ALA SEQRES 18 A 277 LEU LEU GLY LEU GLY ASN TYR PRO LEU GLU GLY ASN LEU SEQRES 19 A 277 ALA GLU GLY VAL VAL ILE ARG HIS VAL ARG ARG GLY ASP SEQRES 20 A 277 PRO ALA VAL GLU LYS HIS ASN VAL SER THR ILE ILE LYS SEQRES 21 A 277 LEU ARG CYS SER SER PHE MSE GLU LEU LYS HIS PRO GLY SEQRES 22 A 277 LYS GLN LYS GLU MODRES 1XDN MSE A 115 MET SELENOMETHIONINE MODRES 1XDN MSE A 263 MET SELENOMETHIONINE MODRES 1XDN MSE A 314 MET SELENOMETHIONINE HET MSE A 115 8 HET MSE A 263 8 HET MSE A 314 10 HET MG A 502 1 HET ATP A 501 31 HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE FORMUL 1 MSE 3(C5 H11 N O2 SE) FORMUL 2 MG MG 2+ FORMUL 3 ATP C10 H16 N5 O13 P3 FORMUL 4 HOH *440(H2 O) HELIX 1 1 SER A 65 SER A 75 1 11 HELIX 2 2 GLY A 76 GLN A 80 5 5 HELIX 3 3 GLY A 123 ILE A 126 5 4 HELIX 4 4 LEU A 127 GLY A 147 1 21 HELIX 5 5 ALA A 188 VAL A 190 5 3 HELIX 6 6 ALA A 218 GLU A 220 5 3 HELIX 7 7 GLY A 226 LYS A 236 1 11 HELIX 8 8 THR A 250 ALA A 256 1 7 HELIX 9 9 ASP A 258 PHE A 262 5 5 HELIX 10 10 PRO A 265 LEU A 270 1 6 HELIX 11 11 ASP A 294 LYS A 299 1 6 HELIX 12 12 CYS A 310 LEU A 316 1 7 SHEET 1 A 4 VAL A 247 GLY A 249 0 SHEET 2 A 4 TRP A 82 LYS A 87 -1 N TRP A 82 O GLY A 249 SHEET 3 A 4 GLY A 284 HIS A 289 -1 O VAL A 286 N CYS A 85 SHEET 4 A 4 ILE A 305 ARG A 309 -1 O ILE A 306 N ILE A 287 SHEET 1 B 6 GLY A 113 ILE A 114 0 SHEET 2 B 6 HIS A 103 LYS A 110 -1 N LYS A 110 O GLY A 113 SHEET 3 B 6 THR A 91 GLN A 100 -1 N GLN A 100 O HIS A 103 SHEET 4 B 6 ARG A 153 LYS A 164 -1 O LEU A 160 N THR A 91 SHEET 5 B 6 SER A 201 SER A 214 -1 O LYS A 212 N VAL A 155 SHEET 6 B 6 PHE A 222 LEU A 224 -1 O VAL A 223 N TYR A 213 SHEET 1 C 6 GLY A 113 ILE A 114 0 SHEET 2 C 6 HIS A 103 LYS A 110 -1 N LYS A 110 O GLY A 113 SHEET 3 C 6 THR A 91 GLN A 100 -1 N GLN A 100 O HIS A 103 SHEET 4 C 6 ARG A 153 LYS A 164 -1 O LEU A 160 N THR A 91 SHEET 5 C 6 SER A 201 SER A 214 -1 O LYS A 212 N VAL A 155 SHEET 6 C 6 LEU A 241 TYR A 242 1 O LEU A 241 N ALA A 208 SHEET 1 D 2 TRP A 176 THR A 178 0 SHEET 2 D 2 LYS A 184 PRO A 186 -1 O PHE A 185 N CYS A 177 LINK C ILE A 114 N MSE A 115 1555 1555 1.33 LINK C MSE A 115 N ASP A 116 1555 1555 1.33 LINK C PHE A 262 N MSE A 263 1555 1555 1.33 LINK C MSE A 263 N THR A 264 1555 1555 1.32 LINK C PHE A 313 N MSE A 314 1555 1555 1.33 LINK C MSE A 314 N GLU A 315 1555 1555 1.33 LINK O1G ATP A 501 MG MG A 502 1555 1555 2.09 LINK O2B ATP A 501 MG MG A 502 1555 1555 2.06 LINK MG MG A 502 O HOH A 514 1555 1555 2.07 LINK MG MG A 502 O HOH A 520 1555 1555 2.11 LINK MG MG A 502 O HOH A 528 1555 1555 2.13 LINK MG MG A 502 O HOH A 530 1555 1555 2.04 CISPEP 1 PHE A 197 PRO A 198 0 -7.28 SITE 1 AC1 5 ATP A 501 HOH A 514 HOH A 520 HOH A 528 SITE 2 AC1 5 HOH A 530 SITE 1 AC2 27 TYR A 58 ILE A 59 GLU A 60 ILE A 61 SITE 2 AC2 27 GLU A 86 LYS A 87 VAL A 88 ASN A 92 SITE 3 AC2 27 ARG A 111 GLU A 159 PHE A 209 VAL A 286 SITE 4 AC2 27 LYS A 307 ARG A 309 MG A 502 HOH A 514 SITE 5 AC2 27 HOH A 520 HOH A 528 HOH A 530 HOH A 536 SITE 6 AC2 27 HOH A 587 HOH A 634 HOH A 650 HOH A 777 SITE 7 AC2 27 HOH A 829 HOH A 871 HOH A 886 CRYST1 44.911 58.579 52.984 90.00 100.23 90.00 P 1 21 1 2 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 0.022266 0.000000 0.004018 0.00000 SCALE2 0.000000 0.017071 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019179 0.00000