HEADER LIGASE 30-JUL-06 2HVQ TITLE STRUCTURE OF ADENYLATED FULL-LENGTH T4 RNA LIGASE 2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL 37.6 KDA PROTEIN IN GP24-HOC INTERGENIC COMPND 3 REGION; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: ORF1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE T4; SOURCE 3 ORGANISM_TAXID: 10665; SOURCE 4 GENE: Y10A, 24.1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-HIS-SMT3-RNL2 KEYWDS RNA, LIGASE, LYSINE ADENYLATE, T4 EXPDTA X-RAY DIFFRACTION AUTHOR J.NANDAKUMAR,C.D.LIMA REVDAT 4 30-AUG-23 2HVQ 1 REMARK SEQADV LINK REVDAT 3 18-OCT-17 2HVQ 1 REMARK REVDAT 2 24-FEB-09 2HVQ 1 VERSN REVDAT 1 17-OCT-06 2HVQ 0 JRNL AUTH J.NANDAKUMAR,S.SHUMAN,C.D.LIMA JRNL TITL RNA LIGASE STRUCTURES REVEAL THE BASIS FOR RNA SPECIFICITY JRNL TITL 2 AND CONFORMATIONAL CHANGES THAT DRIVE LIGATION FORWARD. JRNL REF CELL(CAMBRIDGE,MASS.) V. 127 71 2006 JRNL REFN ISSN 0092-8674 JRNL PMID 17018278 JRNL DOI 10.1016/J.CELL.2006.08.038 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.56 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1633231.500 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 91.8 REMARK 3 NUMBER OF REFLECTIONS : 12469 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 SET) : 0.211 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 613 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.011 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.55 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1858 REMARK 3 BIN R VALUE (WORKING SET) : 0.2590 REMARK 3 BIN FREE R VALUE : 0.3150 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 93 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.033 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2519 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 116 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.29000 REMARK 3 B22 (A**2) : -3.07000 REMARK 3 B33 (A**2) : 7.36000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.26 REMARK 3 ESD FROM SIGMAA (A) : 0.26 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) : 0.39 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.780 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.830 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.850 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.310 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.560 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.39 REMARK 3 BSOL : 60.47 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP-APL.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN-APL.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2HVQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-JUL-06. REMARK 100 THE DEPOSITION ID IS D_1000038818. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-APR-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.75 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : ROSENBAUM-ROCK DOUBLE CRYSTAL REMARK 200 SAGITTAL FOCUSING MONOCHROMETER REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12520 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 41.560 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -1.200 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.6 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.38200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.200 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 1S68 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM MES, 10% MPD, 30 MM NACL, PH REMARK 280 5.75, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K 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 24.01000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 59.74500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.92500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 59.74500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.01000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 28.92500 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: 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 LYS A 235 REMARK 465 LYS A 236 REMARK 465 SER A 237 REMARK 465 ASP A 238 REMARK 465 LYS A 239 REMARK 465 PRO A 240 REMARK 465 ILE A 241 REMARK 465 LYS A 242 REMARK 465 ALA A 243 REMARK 465 GLY A 275 REMARK 465 GLU A 276 REMARK 465 ILE A 277 REMARK 465 TRP A 329 REMARK 465 ILE A 330 REMARK 465 GLU A 331 REMARK 465 LEU A 332 REMARK 465 VAL A 333 REMARK 465 SER A 334 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 GLU A 233 CB CG CD OE1 OE2 REMARK 470 LYS A 234 CB CG CD CE NZ 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 ASN A 13 83.51 -62.93 REMARK 500 SER A 127 2.41 -67.69 REMARK 500 LYS A 146 65.02 69.15 REMARK 500 PRO A 151 130.38 -39.42 REMARK 500 PHE A 201 139.72 -39.16 REMARK 500 GLU A 233 -79.47 -50.86 REMARK 500 SER A 248 -177.55 -68.71 REMARK 500 ASP A 281 44.41 -107.26 REMARK 500 THR A 303 171.90 -56.02 REMARK 500 ALA A 307 155.95 -41.77 REMARK 500 PRO A 327 29.19 -71.28 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 335 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 APK A 35 O2P REMARK 620 2 HIS A 37 ND1 152.8 REMARK 620 3 GLU A 204 OE1 126.6 79.8 REMARK 620 4 GLU A 204 OE2 123.5 65.3 51.2 REMARK 620 5 HOH A 391 O 79.6 78.6 147.2 135.3 REMARK 620 6 HOH A 410 O 81.5 109.9 85.5 136.7 79.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 336 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ILE A 162 O REMARK 620 2 LEU A 164 O 120.9 REMARK 620 3 ASN A 166 OD1 153.0 85.8 REMARK 620 4 TYR A 206 OH 83.8 84.9 95.8 REMARK 620 5 HOH A 352 O 82.6 102.7 95.9 166.5 REMARK 620 N 1 2 3 4 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 335 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 336 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2HVR RELATED DB: PDB REMARK 900 STRUCTURE OF T4 RNA LIGASE 2 WITH NICKED 5'-ADENYLATED NUCLEIC ACID REMARK 900 DUPLEX CONTAINING A 3'-DEOXYRIBONUCLEOTIDE AT THE NICK REMARK 900 RELATED ID: 2HVS RELATED DB: PDB REMARK 900 STRUCTURE OF T4 RNA LIGASE 2 WITH NICKED 5'-ADENYLATED NUCLEIC ACID REMARK 900 DUPLEX CONTAINING A 2'-DEOXYRIBONUCLEOTIDE AT THE NICK REMARK 900 RELATED ID: 1S68 RELATED DB: PDB REMARK 900 STRUCTURE AND MECHANISM OF RNA LIGASE REMARK 999 REMARK 999 SEQUENCE REMARK 999 ACCORDING TO AUTHORS, GLYCINE AT POSITION 112 IS CORRECT. REMARK 999 THIS MUTATION LIKELY REPRESENTS A NATURAL MUTATION IN THE REMARK 999 'POPULATION' OF T4 PHAGE DBREF 2HVQ A 1 334 UNP P32277 Y10A_BPT4 1 334 SEQADV 2HVQ SER A 0 UNP P32277 CLONING ARTIFACT SEQADV 2HVQ APK A 35 UNP P32277 LYS 35 MODIFIED RESIDUE SEQADV 2HVQ GLY A 112 UNP P32277 CYS 112 SEE REMARK 999 SEQRES 1 A 335 SER MET PHE LYS LYS TYR SER SER LEU GLU ASN HIS TYR SEQRES 2 A 335 ASN SER LYS PHE ILE GLU LYS LEU TYR SER LEU GLY LEU SEQRES 3 A 335 THR GLY GLY GLU TRP VAL ALA ARG GLU APK ILE HIS GLY SEQRES 4 A 335 THR ASN PHE SER LEU ILE ILE GLU ARG ASP LYS VAL THR SEQRES 5 A 335 CYS ALA LYS ARG THR GLY PRO ILE LEU PRO ALA GLU ASP SEQRES 6 A 335 PHE PHE GLY TYR GLU ILE ILE LEU LYS ASN TYR ALA ASP SEQRES 7 A 335 SER ILE LYS ALA VAL GLN ASP ILE MET GLU THR SER ALA SEQRES 8 A 335 VAL VAL SER TYR GLN VAL PHE GLY GLU PHE ALA GLY PRO SEQRES 9 A 335 GLY ILE GLN LYS ASN VAL ASP TYR GLY ASP LYS ASP PHE SEQRES 10 A 335 TYR VAL PHE ASP ILE ILE VAL THR THR GLU SER GLY ASP SEQRES 11 A 335 VAL THR TYR VAL ASP ASP TYR MET MET GLU SER PHE CYS SEQRES 12 A 335 ASN THR PHE LYS PHE LYS MET ALA PRO LEU LEU GLY ARG SEQRES 13 A 335 GLY LYS PHE GLU GLU LEU ILE LYS LEU PRO ASN ASP LEU SEQRES 14 A 335 ASP SER VAL VAL GLN ASP TYR ASN PHE THR VAL ASP HIS SEQRES 15 A 335 ALA GLY LEU VAL ASP ALA ASN LYS CYS VAL TRP ASN ALA SEQRES 16 A 335 GLU ALA LYS GLY GLU VAL PHE THR ALA GLU GLY TYR VAL SEQRES 17 A 335 LEU LYS PRO CYS TYR PRO SER TRP LEU ARG ASN GLY ASN SEQRES 18 A 335 ARG VAL ALA ILE LYS CYS LYS ASN SER LYS PHE SER GLU SEQRES 19 A 335 LYS LYS LYS SER ASP LYS PRO ILE LYS ALA LYS VAL GLU SEQRES 20 A 335 LEU SER GLU ALA ASP ASN LYS LEU VAL GLY ILE LEU ALA SEQRES 21 A 335 CYS TYR VAL THR LEU ASN ARG VAL ASN ASN VAL ILE SER SEQRES 22 A 335 LYS ILE GLY GLU ILE GLY PRO LYS ASP PHE GLY LYS VAL SEQRES 23 A 335 MET GLY LEU THR VAL GLN ASP ILE LEU GLU GLU THR SER SEQRES 24 A 335 ARG GLU GLY ILE THR LEU THR GLN ALA ASP ASN PRO SER SEQRES 25 A 335 LEU ILE LYS LYS GLU LEU VAL LYS MET VAL GLN ASP VAL SEQRES 26 A 335 LEU ARG PRO ALA TRP ILE GLU LEU VAL SER MODRES 2HVQ APK A 35 LYS HET APK A 35 31 HET MG A 335 1 HET MG A 336 1 HETNAM APK 5'-O-[(S)-{[(5S)-5-AMINO-6-OXOHEXYL]AMINO}(HYDROXY) HETNAM 2 APK PHOSPHORYL]ADENOSINE HETNAM MG MAGNESIUM ION FORMUL 1 APK C16 H26 N7 O7 P FORMUL 2 MG 2(MG 2+) FORMUL 4 HOH *116(H2 O) HELIX 1 1 ASN A 13 LEU A 23 1 11 HELIX 2 2 TYR A 68 ASP A 84 1 17 HELIX 3 3 ILE A 85 ALA A 90 1 6 HELIX 4 4 ASP A 134 LYS A 146 1 13 HELIX 5 5 LYS A 157 ILE A 162 1 6 HELIX 6 6 VAL A 171 GLY A 183 1 13 HELIX 7 7 GLY A 183 CYS A 190 1 8 HELIX 8 8 ASN A 228 LYS A 234 1 7 HELIX 9 9 SER A 248 ALA A 259 1 12 HELIX 10 10 CYS A 260 VAL A 262 5 3 HELIX 11 11 THR A 263 LYS A 273 1 11 HELIX 12 12 ASP A 281 GLU A 300 1 20 HELIX 13 13 ASN A 309 VAL A 324 1 16 SHEET 1 A 5 GLU A 9 ASN A 10 0 SHEET 2 A 5 ILE A 224 LYS A 227 1 O LYS A 225 N GLU A 9 SHEET 3 A 5 GLY A 205 PRO A 210 -1 N TYR A 206 O CYS A 226 SHEET 4 A 5 TRP A 30 GLU A 34 -1 N VAL A 31 O LYS A 209 SHEET 5 A 5 LEU A 152 GLY A 156 -1 O LEU A 153 N ALA A 32 SHEET 1 B 6 GLY A 57 PRO A 58 0 SHEET 2 B 6 LYS A 49 LYS A 54 -1 N LYS A 54 O GLY A 57 SHEET 3 B 6 THR A 39 GLU A 46 -1 N ILE A 44 O THR A 51 SHEET 4 B 6 VAL A 91 ALA A 101 -1 O TYR A 94 N ILE A 45 SHEET 5 B 6 ASP A 115 THR A 125 -1 O ILE A 122 N GLN A 95 SHEET 6 B 6 VAL A 130 TYR A 132 -1 O THR A 131 N VAL A 123 SHEET 1 C 6 GLY A 57 PRO A 58 0 SHEET 2 C 6 LYS A 49 LYS A 54 -1 N LYS A 54 O GLY A 57 SHEET 3 C 6 THR A 39 GLU A 46 -1 N ILE A 44 O THR A 51 SHEET 4 C 6 VAL A 91 ALA A 101 -1 O TYR A 94 N ILE A 45 SHEET 5 C 6 ASP A 115 THR A 125 -1 O ILE A 122 N GLN A 95 SHEET 6 C 6 LYS A 148 MET A 149 1 O LYS A 148 N VAL A 118 LINK C GLU A 34 N APK A 35 1555 1555 1.33 LINK C APK A 35 N ILE A 36 1555 1555 1.34 LINK O2P APK A 35 MG MG A 335 1555 1555 2.77 LINK ND1 HIS A 37 MG MG A 335 1555 1555 3.03 LINK O ILE A 162 MG MG A 336 1555 1555 2.49 LINK O LEU A 164 MG MG A 336 1555 1555 2.29 LINK OD1 ASN A 166 MG MG A 336 1555 1555 2.40 LINK OE1 GLU A 204 MG MG A 335 1555 1555 2.53 LINK OE2 GLU A 204 MG MG A 335 1555 1555 2.56 LINK OH TYR A 206 MG MG A 336 1555 1555 2.40 LINK MG MG A 335 O HOH A 391 1555 1555 2.55 LINK MG MG A 335 O HOH A 410 1555 1555 2.37 LINK MG MG A 336 O HOH A 352 1555 3645 2.45 SITE 1 AC1 5 APK A 35 HIS A 37 GLU A 204 HOH A 391 SITE 2 AC1 5 HOH A 410 SITE 1 AC2 5 ILE A 162 LEU A 164 ASN A 166 TYR A 206 SITE 2 AC2 5 HOH A 352 CRYST1 48.020 57.850 119.490 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 0.020825 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017286 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008369 0.00000