HEADER TRANSFERASE 10-JUL-09 3A4M TITLE CRYSTAL STRUCTURE OF ARCHAEAL O-PHOSPHOSERYL-TRNA(SEC) KINASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-SERYL-TRNA(SEC) KINASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: O-PHOSPHOSERYL-TRNA(SEC) KINASE, PSTK; COMPND 5 EC: 2.7.1.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCALDOCOCCUS JANNASCHII; SOURCE 3 ORGANISM_COMMON: METHANOCOCCUS JANNASCHII; SOURCE 4 ORGANISM_TAXID: 2190; SOURCE 5 STRAIN: K-12; SOURCE 6 GENE: MJ1538; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET20B KEYWDS P-LOOP MOTIF, WALKER A MOTIF, ATP BINDING MOTIF, ATP-BINDING, KINASE, KEYWDS 2 NUCLEOTIDE-BINDING, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.ARAISO,R.ISHITANI,D.SOLL,O.NUREKI REVDAT 2 13-MAR-24 3A4M 1 REMARK SEQADV LINK REVDAT 1 20-OCT-09 3A4M 0 JRNL AUTH Y.ARAISO,R.L.SHERRER,R.ISHITANI,J.M.L.HO,D.SOLL,O.NUREKI JRNL TITL STRUCTURE OF A TRNA-DEPENDENT KINASE ESSENTIAL FOR JRNL TITL 2 SELENOCYSTEINE DECODING JRNL REF PROC.NATL.ACAD.SCI.USA V. 106 16215 2009 JRNL REFN ISSN 0027-8424 JRNL PMID 19805283 JRNL DOI 10.1073/PNAS.0908861106 REMARK 2 REMARK 2 RESOLUTION. 1.79 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.79 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.50 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.030 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 47054 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2351 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 46.5138 - 4.6057 0.99 2723 149 0.2290 0.2309 REMARK 3 2 4.6057 - 3.6561 1.00 2691 132 0.1810 0.2109 REMARK 3 3 3.6561 - 3.1941 1.00 2688 141 0.1985 0.2150 REMARK 3 4 3.1941 - 2.9021 1.00 2684 142 0.2186 0.2757 REMARK 3 5 2.9021 - 2.6941 1.00 2676 134 0.2108 0.2807 REMARK 3 6 2.6941 - 2.5353 1.00 2635 142 0.2133 0.2641 REMARK 3 7 2.5353 - 2.4083 1.00 2659 136 0.2034 0.2497 REMARK 3 8 2.4083 - 2.3035 1.00 2658 145 0.2008 0.3005 REMARK 3 9 2.3035 - 2.2148 0.99 2687 131 0.1988 0.2717 REMARK 3 10 2.2148 - 2.1384 0.99 2627 141 0.1934 0.2561 REMARK 3 11 2.1384 - 2.0715 1.00 2633 151 0.1896 0.2462 REMARK 3 12 2.0715 - 2.0123 0.99 2632 127 0.1864 0.2457 REMARK 3 13 2.0123 - 1.9593 0.99 2669 154 0.1919 0.2487 REMARK 3 14 1.9593 - 1.9115 0.99 2603 139 0.2016 0.2685 REMARK 3 15 1.9115 - 1.8681 0.98 2602 130 0.2217 0.2705 REMARK 3 16 1.8681 - 1.8283 0.96 2564 129 0.2396 0.3087 REMARK 3 17 1.8283 - 1.7917 0.85 2272 128 0.2452 0.2861 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.40 REMARK 3 B_SOL : 67.89 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.190 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.67 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.86300 REMARK 3 B22 (A**2) : 2.43000 REMARK 3 B33 (A**2) : 2.43300 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.82200 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.023 4115 REMARK 3 ANGLE : 1.926 5512 REMARK 3 CHIRALITY : 0.139 614 REMARK 3 PLANARITY : 0.009 665 REMARK 3 DIHEDRAL : 20.069 1622 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3A4M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000028804. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-08; 19-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY; SPRING-8 REMARK 200 BEAMLINE : AR-NW12A; BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000; 0.9791, 0.9794, 0.9642 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210; ADSC QUANTUM REMARK 200 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47081 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.790 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.84 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10MM HEPES-NAOH, 250MM KI AND 21% PEG REMARK 280 3350, PH 7.5, VAPOR DIFFUSION, TEMPERATURE 293K 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 37.26200 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.0 KCAL/MOL 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 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 GLY A 2 REMARK 465 TYR A 178 REMARK 465 VAL A 179 REMARK 465 LEU A 180 REMARK 465 GLU A 181 REMARK 465 GLU A 182 REMARK 465 ASN A 183 REMARK 465 LYS A 184 REMARK 465 ASN A 185 REMARK 465 LYS A 186 REMARK 465 ASN A 187 REMARK 465 ASN A 188 REMARK 465 MET A 233 REMARK 465 GLU A 234 REMARK 465 GLU A 235 REMARK 465 LEU A 253 REMARK 465 GLU A 254 REMARK 465 HIS A 255 REMARK 465 HIS A 256 REMARK 465 HIS A 257 REMARK 465 HIS A 258 REMARK 465 HIS A 259 REMARK 465 HIS A 260 REMARK 465 MET B 1 REMARK 465 GLY B 2 REMARK 465 TYR B 178 REMARK 465 VAL B 179 REMARK 465 LEU B 180 REMARK 465 GLU B 181 REMARK 465 GLU B 182 REMARK 465 ASN B 183 REMARK 465 LYS B 184 REMARK 465 ASN B 185 REMARK 465 LYS B 186 REMARK 465 ASN B 187 REMARK 465 ASN B 188 REMARK 465 MET B 233 REMARK 465 GLU B 234 REMARK 465 GLU B 235 REMARK 465 LEU B 253 REMARK 465 GLU B 254 REMARK 465 HIS B 255 REMARK 465 HIS B 256 REMARK 465 HIS B 257 REMARK 465 HIS B 258 REMARK 465 HIS B 259 REMARK 465 HIS B 260 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 O HOH A 298 O HOH A 369 1.93 REMARK 500 O HOH B 312 O HOH B 368 2.11 REMARK 500 O HOH B 328 O HOH B 375 2.16 REMARK 500 OE1 GLU B 147 O HOH B 306 2.18 REMARK 500 O HOH A 282 O HOH B 313 2.19 REMARK 500 O HOH A 362 O HOH A 378 2.19 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 GLU A 218 CG GLU A 218 CD 0.099 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 ASP A 3 CB - CG - OD1 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG A 116 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 ASP B 3 CB - CG - OD1 ANGL. DEV. = -6.3 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 GLU A 122 55.91 34.12 REMARK 500 LYS A 142 -45.47 -134.87 REMARK 500 LYS A 210 72.11 44.54 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 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 18 OG REMARK 620 2 HOH A 268 O 168.5 REMARK 620 3 HOH A 269 O 89.5 93.2 REMARK 620 4 HOH A 279 O 83.6 85.4 86.9 REMARK 620 5 HOH A 280 O 87.7 87.5 169.3 82.5 REMARK 620 6 ADP A 301 O2B 97.2 93.4 98.9 174.1 91.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 18 OG REMARK 620 2 HOH B 267 O 84.3 REMARK 620 3 HOH B 274 O 92.9 170.9 REMARK 620 4 HOH B 275 O 169.8 91.8 89.5 REMARK 620 5 HOH B 285 O 83.0 80.2 90.9 87.0 REMARK 620 6 ADP B 301 O1B 94.3 100.4 88.5 95.7 177.2 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 ADP A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 261 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IOD B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 261 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 262 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 263 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3A4L RELATED DB: PDB REMARK 900 RELATED ID: 3A4N RELATED DB: PDB DBREF 3A4M A 5 252 UNP Q58933 PSTK_METJA 1 248 DBREF 3A4M B 5 252 UNP Q58933 PSTK_METJA 1 248 SEQADV 3A4M MET A 1 UNP Q58933 EXPRESSION TAG SEQADV 3A4M GLY A 2 UNP Q58933 EXPRESSION TAG SEQADV 3A4M ASP A 3 UNP Q58933 EXPRESSION TAG SEQADV 3A4M ILE A 4 UNP Q58933 EXPRESSION TAG SEQADV 3A4M LEU A 253 UNP Q58933 EXPRESSION TAG SEQADV 3A4M GLU A 254 UNP Q58933 EXPRESSION TAG SEQADV 3A4M HIS A 255 UNP Q58933 EXPRESSION TAG SEQADV 3A4M HIS A 256 UNP Q58933 EXPRESSION TAG SEQADV 3A4M HIS A 257 UNP Q58933 EXPRESSION TAG SEQADV 3A4M HIS A 258 UNP Q58933 EXPRESSION TAG SEQADV 3A4M HIS A 259 UNP Q58933 EXPRESSION TAG SEQADV 3A4M HIS A 260 UNP Q58933 EXPRESSION TAG SEQADV 3A4M MET B 1 UNP Q58933 EXPRESSION TAG SEQADV 3A4M GLY B 2 UNP Q58933 EXPRESSION TAG SEQADV 3A4M ASP B 3 UNP Q58933 EXPRESSION TAG SEQADV 3A4M ILE B 4 UNP Q58933 EXPRESSION TAG SEQADV 3A4M LEU B 253 UNP Q58933 EXPRESSION TAG SEQADV 3A4M GLU B 254 UNP Q58933 EXPRESSION TAG SEQADV 3A4M HIS B 255 UNP Q58933 EXPRESSION TAG SEQADV 3A4M HIS B 256 UNP Q58933 EXPRESSION TAG SEQADV 3A4M HIS B 257 UNP Q58933 EXPRESSION TAG SEQADV 3A4M HIS B 258 UNP Q58933 EXPRESSION TAG SEQADV 3A4M HIS B 259 UNP Q58933 EXPRESSION TAG SEQADV 3A4M HIS B 260 UNP Q58933 EXPRESSION TAG SEQRES 1 A 260 MET GLY ASP ILE MET LEU ILE ILE LEU THR GLY LEU PRO SEQRES 2 A 260 GLY VAL GLY LYS SER THR PHE SER LYS ASN LEU ALA LYS SEQRES 3 A 260 ILE LEU SER LYS ASN ASN ILE ASP VAL ILE VAL LEU GLY SEQRES 4 A 260 SER ASP LEU ILE ARG GLU SER PHE PRO VAL TRP LYS GLU SEQRES 5 A 260 LYS TYR GLU GLU PHE ILE LYS LYS SER THR TYR ARG LEU SEQRES 6 A 260 ILE ASP SER ALA LEU LYS ASN TYR TRP VAL ILE VAL ASP SEQRES 7 A 260 ASP THR ASN TYR TYR ASN SER MET ARG ARG ASP LEU ILE SEQRES 8 A 260 ASN ILE ALA LYS LYS TYR ASN LYS ASN TYR ALA ILE ILE SEQRES 9 A 260 TYR LEU LYS ALA SER LEU ASP VAL LEU ILE ARG ARG ASN SEQRES 10 A 260 ILE GLU ARG GLY GLU LYS ILE PRO ASN GLU VAL ILE LYS SEQRES 11 A 260 LYS MET TYR GLU LYS PHE ASP GLU PRO GLY LYS LYS TYR SEQRES 12 A 260 LYS TRP ASP GLU PRO PHE LEU ILE ILE ASP THR THR LYS SEQRES 13 A 260 ASP ILE ASP PHE ASN GLU ILE ALA LYS LYS LEU ILE GLU SEQRES 14 A 260 LYS SER LYS GLU ILE PRO LYS PHE TYR VAL LEU GLU GLU SEQRES 15 A 260 ASN LYS ASN LYS ASN ASN ASN ILE SER ASP LYS ILE ASP SEQRES 16 A 260 LYS GLU THR ARG LYS ILE VAL SER GLU TYR ILE LYS SER SEQRES 17 A 260 LYS LYS LEU ASP LYS ASP LYS ILE LYS GLU VAL VAL GLU SEQRES 18 A 260 LEU ARG LYS GLU PHE LEU LYS LYS ILE LYS LYS MET GLU SEQRES 19 A 260 GLU VAL ASP ALA ASP ARG VAL LEU LYS GLU PHE LYS ASP SEQRES 20 A 260 LEU LEU ASN SER TYR LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 260 MET GLY ASP ILE MET LEU ILE ILE LEU THR GLY LEU PRO SEQRES 2 B 260 GLY VAL GLY LYS SER THR PHE SER LYS ASN LEU ALA LYS SEQRES 3 B 260 ILE LEU SER LYS ASN ASN ILE ASP VAL ILE VAL LEU GLY SEQRES 4 B 260 SER ASP LEU ILE ARG GLU SER PHE PRO VAL TRP LYS GLU SEQRES 5 B 260 LYS TYR GLU GLU PHE ILE LYS LYS SER THR TYR ARG LEU SEQRES 6 B 260 ILE ASP SER ALA LEU LYS ASN TYR TRP VAL ILE VAL ASP SEQRES 7 B 260 ASP THR ASN TYR TYR ASN SER MET ARG ARG ASP LEU ILE SEQRES 8 B 260 ASN ILE ALA LYS LYS TYR ASN LYS ASN TYR ALA ILE ILE SEQRES 9 B 260 TYR LEU LYS ALA SER LEU ASP VAL LEU ILE ARG ARG ASN SEQRES 10 B 260 ILE GLU ARG GLY GLU LYS ILE PRO ASN GLU VAL ILE LYS SEQRES 11 B 260 LYS MET TYR GLU LYS PHE ASP GLU PRO GLY LYS LYS TYR SEQRES 12 B 260 LYS TRP ASP GLU PRO PHE LEU ILE ILE ASP THR THR LYS SEQRES 13 B 260 ASP ILE ASP PHE ASN GLU ILE ALA LYS LYS LEU ILE GLU SEQRES 14 B 260 LYS SER LYS GLU ILE PRO LYS PHE TYR VAL LEU GLU GLU SEQRES 15 B 260 ASN LYS ASN LYS ASN ASN ASN ILE SER ASP LYS ILE ASP SEQRES 16 B 260 LYS GLU THR ARG LYS ILE VAL SER GLU TYR ILE LYS SER SEQRES 17 B 260 LYS LYS LEU ASP LYS ASP LYS ILE LYS GLU VAL VAL GLU SEQRES 18 B 260 LEU ARG LYS GLU PHE LEU LYS LYS ILE LYS LYS MET GLU SEQRES 19 B 260 GLU VAL ASP ALA ASP ARG VAL LEU LYS GLU PHE LYS ASP SEQRES 20 B 260 LEU LEU ASN SER TYR LEU GLU HIS HIS HIS HIS HIS HIS HET ADP A 301 27 HET MG A 401 1 HET IOD A 402 1 HET EDO A 261 4 HET ADP B 301 27 HET MG B 401 1 HET IOD B 402 1 HET EDO B 261 4 HET EDO B 262 4 HET EDO B 263 4 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM IOD IODIDE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 ADP 2(C10 H15 N5 O10 P2) FORMUL 4 MG 2(MG 2+) FORMUL 5 IOD 2(I 1-) FORMUL 6 EDO 4(C2 H6 O2) FORMUL 13 HOH *265(H2 O) HELIX 1 1 GLY A 16 ASN A 31 1 16 HELIX 2 2 SER A 40 GLU A 45 1 6 HELIX 3 3 LYS A 51 LYS A 53 5 3 HELIX 4 4 TYR A 54 LYS A 71 1 18 HELIX 5 5 TYR A 83 TYR A 97 1 15 HELIX 6 6 SER A 109 ARG A 120 1 12 HELIX 7 7 PRO A 125 PHE A 136 1 12 HELIX 8 8 TYR A 143 GLU A 147 5 5 HELIX 9 9 ASP A 159 LYS A 172 1 14 HELIX 10 10 ASN A 189 LYS A 210 1 22 HELIX 11 11 ASP A 212 LYS A 232 1 21 HELIX 12 12 ASP A 237 TYR A 252 1 16 HELIX 13 13 GLY B 16 ASN B 31 1 16 HELIX 14 14 SER B 40 GLU B 45 1 6 HELIX 15 15 LYS B 53 LYS B 71 1 19 HELIX 16 16 TYR B 83 TYR B 97 1 15 HELIX 17 17 SER B 109 ARG B 120 1 12 HELIX 18 18 PRO B 125 PHE B 136 1 12 HELIX 19 19 TYR B 143 GLU B 147 5 5 HELIX 20 20 ASP B 159 LYS B 172 1 14 HELIX 21 21 ASN B 189 LYS B 209 1 21 HELIX 22 22 ASP B 212 LYS B 232 1 21 HELIX 23 23 ASP B 237 TYR B 252 1 16 SHEET 1 A 5 VAL A 35 LEU A 38 0 SHEET 2 A 5 TRP A 74 VAL A 77 1 O ILE A 76 N ILE A 36 SHEET 3 A 5 MET A 5 THR A 10 1 N ILE A 7 O VAL A 75 SHEET 4 A 5 ASN A 100 LYS A 107 1 O ILE A 104 N ILE A 8 SHEET 5 A 5 LEU A 150 ASP A 153 1 O ILE A 152 N TYR A 105 SHEET 1 B 5 VAL B 35 LEU B 38 0 SHEET 2 B 5 TRP B 74 VAL B 77 1 O ILE B 76 N LEU B 38 SHEET 3 B 5 MET B 5 THR B 10 1 N ILE B 7 O VAL B 77 SHEET 4 B 5 ASN B 100 LYS B 107 1 O ALA B 102 N ILE B 8 SHEET 5 B 5 LEU B 150 ASP B 153 1 O ILE B 152 N LYS B 107 LINK OG SER A 18 MG MG A 401 1555 1555 2.24 LINK O HOH A 268 MG MG A 401 1555 1555 2.20 LINK O HOH A 269 MG MG A 401 1555 1555 2.10 LINK O HOH A 279 MG MG A 401 1555 1555 2.33 LINK O HOH A 280 MG MG A 401 1555 1555 2.22 LINK O2B ADP A 301 MG MG A 401 1555 1555 2.07 LINK OG SER B 18 MG MG B 401 1555 1555 2.17 LINK O HOH B 267 MG MG B 401 1555 1555 1.98 LINK O HOH B 274 MG MG B 401 1555 1555 2.12 LINK O HOH B 275 MG MG B 401 1555 1555 2.15 LINK O HOH B 285 MG MG B 401 1555 1555 2.34 LINK O1B ADP B 301 MG MG B 401 1555 1555 2.02 SITE 1 AC1 15 GLY A 14 VAL A 15 GLY A 16 LYS A 17 SITE 2 AC1 15 SER A 18 THR A 19 ARG A 116 ARG A 120 SITE 3 AC1 15 THR A 154 HOH A 268 HOH A 280 HOH A 287 SITE 4 AC1 15 HOH A 325 HOH A 337 MG A 401 SITE 1 AC2 6 SER A 18 HOH A 268 HOH A 269 HOH A 279 SITE 2 AC2 6 HOH A 280 ADP A 301 SITE 1 AC3 2 ARG A 199 ARG A 223 SITE 1 AC4 6 GLU A 45 SER A 46 PHE A 47 PRO A 48 SITE 2 AC4 6 ALA B 25 VAL B 37 SITE 1 AC5 14 GLY B 14 VAL B 15 GLY B 16 LYS B 17 SITE 2 AC5 14 SER B 18 THR B 19 ARG B 116 ARG B 120 SITE 3 AC5 14 THR B 154 HOH B 267 HOH B 274 HOH B 275 SITE 4 AC5 14 HOH B 288 MG B 401 SITE 1 AC6 6 SER B 18 HOH B 267 HOH B 274 HOH B 275 SITE 2 AC6 6 HOH B 285 ADP B 301 SITE 1 AC7 2 LYS B 131 ARG B 199 SITE 1 AC8 5 LYS A 22 GLU B 45 SER B 46 PRO B 48 SITE 2 AC8 5 HOH B 342 SITE 1 AC9 5 LYS A 232 HOH A 389 TYR B 143 LYS B 144 SITE 2 AC9 5 TRP B 145 SITE 1 BC1 5 GLU B 56 LYS B 59 LYS B 193 LYS B 196 SITE 2 BC1 5 GLU B 197 CRYST1 58.156 74.524 64.817 90.00 113.37 90.00 P 1 21 1 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 0.017195 0.000000 0.007430 0.00000 SCALE2 0.000000 0.013418 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016807 0.00000