HEADER LIGASE 19-JUL-22 8DQH TITLE CRYSTAL STRUCTURE OF PYRROLYSYL-TRNA SYNTHETASE FROM TITLE 2 METHANOMETHYLOPHILUS ALVUS ENGINEERED FOR ACRIDONE AMINO ACID (RS1) TITLE 3 BOUND TO ATP AND ACRIDONE AFTER 24 HOURS OF CRYSTAL GROWTH COMPND MOL_ID: 1; COMPND 2 MOLECULE: AA_TRNA_LIGASE_II DOMAIN-CONTAINING PROTEIN; COMPND 3 CHAIN: D, A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CANDIDATUS METHANOMETHYLOPHILUS ALVUS; SOURCE 3 ORGANISM_TAXID: 1291540; SOURCE 4 GENE: BKD89_05515; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GENETIC CODE EXPANSION, METHANOMETHYLOPHILUS ALVUS, PYRROLYSYL-TRNA KEYWDS 2 SYNTHETASE, ACRIDONE, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR I.GOTTFRIED-LEE,P.A.KARPLUS,R.A.MEHL,R.B.COOLEY REVDAT 3 25-OCT-23 8DQH 1 REMARK REVDAT 2 28-DEC-22 8DQH 1 JRNL REVDAT 1 07-DEC-22 8DQH 0 JRNL AUTH I.GOTTFRIED-LEE,J.J.PERONA,P.A.KARPLUS,R.A.MEHL,R.B.COOLEY JRNL TITL STRUCTURES OF METHANOMETHYLOPHILUS ALVUS PYRROLYSINE JRNL TITL 2 TRNA-SYNTHETASES SUPPORT THE NEED FOR DE NOVO SELECTIONS JRNL TITL 3 WHEN ALTERING THE SUBSTRATE SPECIFICITY. JRNL REF ACS CHEM.BIOL. V. 17 3470 2022 JRNL REFN ESSN 1554-8937 JRNL PMID 36395426 JRNL DOI 10.1021/ACSCHEMBIO.2C00640 REMARK 2 REMARK 2 RESOLUTION. 1.52 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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) : 1.52 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.44 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 105096 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.166 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.177 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.960 REMARK 3 FREE R VALUE TEST SET COUNT : 5215 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 45.4400 - 4.7200 1.00 3404 177 0.1797 0.1788 REMARK 3 2 4.7200 - 3.7500 1.00 3349 171 0.1344 0.1438 REMARK 3 3 3.7500 - 3.2700 1.00 3372 170 0.1496 0.1433 REMARK 3 4 3.2700 - 2.9800 1.00 3328 176 0.1557 0.1599 REMARK 3 5 2.9700 - 2.7600 1.00 3335 178 0.1646 0.1608 REMARK 3 6 2.7600 - 2.6000 1.00 3330 166 0.1583 0.1589 REMARK 3 7 2.6000 - 2.4700 1.00 3342 175 0.1489 0.1765 REMARK 3 8 2.4700 - 2.3600 1.00 3302 179 0.1480 0.1590 REMARK 3 9 2.3600 - 2.2700 1.00 3355 170 0.1458 0.1772 REMARK 3 10 2.2700 - 2.1900 1.00 3346 182 0.1459 0.1563 REMARK 3 11 2.1900 - 2.1200 1.00 3333 185 0.1522 0.1798 REMARK 3 12 2.1200 - 2.0600 1.00 3287 162 0.1501 0.1708 REMARK 3 13 2.0600 - 2.0100 1.00 3327 182 0.1608 0.1784 REMARK 3 14 2.0100 - 1.9600 1.00 3316 174 0.1746 0.1852 REMARK 3 15 1.9600 - 1.9200 1.00 3347 176 0.1709 0.1839 REMARK 3 16 1.9200 - 1.8700 1.00 3335 167 0.1680 0.2070 REMARK 3 17 1.8700 - 1.8400 1.00 3331 159 0.1632 0.1924 REMARK 3 18 1.8400 - 1.8000 1.00 3308 172 0.1699 0.1979 REMARK 3 19 1.8000 - 1.7700 1.00 3316 181 0.1745 0.1992 REMARK 3 20 1.7700 - 1.7400 1.00 3345 169 0.1909 0.2234 REMARK 3 21 1.7400 - 1.7100 1.00 3322 180 0.2063 0.2375 REMARK 3 22 1.7100 - 1.6900 1.00 3297 160 0.2344 0.2561 REMARK 3 23 1.6900 - 1.6600 1.00 3340 193 0.2629 0.2958 REMARK 3 24 1.6600 - 1.6400 1.00 3298 179 0.2928 0.3580 REMARK 3 25 1.6400 - 1.6200 1.00 3326 154 0.3126 0.3384 REMARK 3 26 1.6200 - 1.5900 1.00 3346 184 0.2506 0.2390 REMARK 3 27 1.5900 - 1.5700 1.00 3284 173 0.2560 0.3048 REMARK 3 28 1.5700 - 1.5600 1.00 3322 182 0.2764 0.3103 REMARK 3 29 1.5600 - 1.5400 1.00 3256 175 0.2822 0.3250 REMARK 3 30 1.5400 - 1.5200 1.00 3382 164 0.3140 0.3534 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.090 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.66 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.51 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 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 8DQH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-JUL-22. REMARK 100 THE DEPOSITION ID IS D_1000266932. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-OCT-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0-6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : .976 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 105102 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.520 REMARK 200 RESOLUTION RANGE LOW (A) : 45.440 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 14.20 REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.52 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.10 REMARK 200 R MERGE FOR SHELL (I) : 2.80200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 6JP2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.84 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, SODIUM CITRATE TRIBASIC REMARK 280 DIHYDRATE, MAGNESIUM CHLORIDE, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 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 -Y,X,Z REMARK 290 4555 Y,-X,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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 8555 Y+1/2,-X+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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 55.43100 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.43100 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 56.77800 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 55.43100 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.43100 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 56.77800 REMARK 290 SMTRY1 7 0.000000 -1.000000 0.000000 55.43100 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 55.43100 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 56.77800 REMARK 290 SMTRY1 8 0.000000 1.000000 0.000000 55.43100 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 55.43100 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 56.77800 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: 7300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -72.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, 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 SER D 0 REMARK 465 SER D 153 REMARK 465 HIS D 154 REMARK 465 SER D 155 REMARK 465 GLY D 156 REMARK 465 SER A 0 REMARK 465 GLY A 1 REMARK 465 THR A 2 REMARK 465 SER A 153 REMARK 465 HIS A 154 REMARK 465 SER A 155 REMARK 465 GLY A 156 REMARK 465 GLU A 201 REMARK 465 GLU A 202 REMARK 465 SER A 203 REMARK 465 ASP A 204 REMARK 465 VAL A 205 REMARK 465 TYR A 206 REMARK 465 LYS A 207 REMARK 465 GLU A 208 REMARK 465 TYR A 228 REMARK 465 LEU A 229 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 LYS D 49 CG CD CE NZ REMARK 470 ASP D 101 CG OD1 OD2 REMARK 470 ARG D 173 CG CD NE CZ NH1 NH2 REMARK 470 ASP D 204 CG OD1 OD2 REMARK 470 LYS D 207 CG CD CE NZ REMARK 470 GLU D 208 CG CD OE1 OE2 REMARK 470 VAL A 3 CG1 CG2 REMARK 470 GLU A 27 CG CD OE1 OE2 REMARK 470 ARG A 95 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 98 CD1 REMARK 470 GLU A 100 CG CD OE1 OE2 REMARK 470 ASP A 101 CB CG OD1 OD2 REMARK 470 LYS A 102 CG CD CE NZ REMARK 470 LYS A 114 CG CD CE NZ REMARK 470 ARG A 130 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 173 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 200 CG CD OE1 NE2 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 O1A ATP D 301 O T7Q D 302 1.96 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 THR D 20 75.76 -112.18 REMARK 500 THR D 20 76.38 -112.65 REMARK 500 LYS D 207 -64.48 76.45 REMARK 500 ARG A 173 -103.41 -120.14 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 D 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 218 OE2 REMARK 620 2 SER D 221 OG 81.1 REMARK 620 3 ATP D 301 O1B 97.8 178.6 REMARK 620 4 ATP D 301 O2A 100.8 89.3 91.8 REMARK 620 5 HOH D 425 O 90.6 81.6 97.5 164.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D 305 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 218 OE1 REMARK 620 2 ATP D 301 O2G 90.8 REMARK 620 3 ATP D 301 O1B 102.7 86.8 REMARK 620 4 HOH D 425 O 75.9 163.4 86.5 REMARK 620 5 HOH D 615 O 86.3 108.4 162.4 81.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D 306 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ATP D 301 O1G REMARK 620 2 ATP D 301 O2B 87.3 REMARK 620 3 HOH D 546 O 97.6 101.0 REMARK 620 4 HOH D 613 O 92.8 174.9 84.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 218 OE2 REMARK 620 2 SER A 221 OG 82.4 REMARK 620 3 ATP A 302 O1B 106.5 170.8 REMARK 620 4 ATP A 302 O2A 137.9 98.2 76.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ATP A 302 O1G REMARK 620 2 ATP A 302 O2B 90.9 REMARK 620 3 HOH A 513 O 95.4 100.1 REMARK 620 N 1 2 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8DQG RELATED DB: PDB REMARK 900 RELATED ID: 8DQI RELATED DB: PDB REMARK 900 RELATED ID: 8DQJ RELATED DB: PDB DBREF1 8DQH D 2 275 UNP A0A3G3IHP7_9ARCH DBREF2 8DQH D A0A3G3IHP7 2 275 DBREF1 8DQH A 2 275 UNP A0A3G3IHP7_9ARCH DBREF2 8DQH A A0A3G3IHP7 2 275 SEQADV 8DQH SER D 0 UNP A0A3G3IHP EXPRESSION TAG SEQADV 8DQH GLY D 1 UNP A0A3G3IHP EXPRESSION TAG SEQADV 8DQH ALA D 166 UNP A0A3G3IHP ASN 166 ENGINEERED MUTATION SEQADV 8DQH GLY D 168 UNP A0A3G3IHP VAL 168 ENGINEERED MUTATION SEQADV 8DQH CYS D 239 UNP A0A3G3IHP TRP 239 ENGINEERED MUTATION SEQADV 8DQH SER A 0 UNP A0A3G3IHP EXPRESSION TAG SEQADV 8DQH GLY A 1 UNP A0A3G3IHP EXPRESSION TAG SEQADV 8DQH ALA A 166 UNP A0A3G3IHP ASN 166 ENGINEERED MUTATION SEQADV 8DQH GLY A 168 UNP A0A3G3IHP VAL 168 ENGINEERED MUTATION SEQADV 8DQH CYS A 239 UNP A0A3G3IHP TRP 239 ENGINEERED MUTATION SEQRES 1 D 276 SER GLY THR VAL LYS TYR THR ASP ALA GLN ILE GLN ARG SEQRES 2 D 276 LEU ARG GLU TYR GLY ASN GLY THR TYR GLU GLN LYS VAL SEQRES 3 D 276 PHE GLU ASP LEU ALA SER ARG ASP ALA ALA PHE SER LYS SEQRES 4 D 276 GLU MET SER VAL ALA SER THR ASP ASN GLU LYS LYS ILE SEQRES 5 D 276 LYS GLY MET ILE ALA ASN PRO SER ARG HIS GLY LEU THR SEQRES 6 D 276 GLN LEU MET ASN ASP ILE ALA ASP ALA LEU VAL ALA GLU SEQRES 7 D 276 GLY PHE ILE GLU VAL ARG THR PRO ILE PHE ILE SER LYS SEQRES 8 D 276 ASP ALA LEU ALA ARG MET THR ILE THR GLU ASP LYS PRO SEQRES 9 D 276 LEU PHE LYS GLN VAL PHE TRP ILE ASP GLU LYS ARG ALA SEQRES 10 D 276 LEU ARG PRO MET LEU ALA PRO ASN LEU TYR SER VAL MET SEQRES 11 D 276 ARG ASP LEU ARG ASP HIS THR ASP GLY PRO VAL LYS ILE SEQRES 12 D 276 PHE GLU MET GLY SER CYS PHE ARG LYS GLU SER HIS SER SEQRES 13 D 276 GLY MET HIS LEU GLU GLU PHE THR MET LEU ALA LEU GLY SEQRES 14 D 276 ASP MET GLY PRO ARG GLY ASP ALA THR GLU VAL LEU LYS SEQRES 15 D 276 ASN TYR ILE SER VAL VAL MET LYS ALA ALA GLY LEU PRO SEQRES 16 D 276 ASP TYR ASP LEU VAL GLN GLU GLU SER ASP VAL TYR LYS SEQRES 17 D 276 GLU THR ILE ASP VAL GLU ILE ASN GLY GLN GLU VAL CYS SEQRES 18 D 276 SER ALA ALA VAL GLY PRO HIS TYR LEU ASP ALA ALA HIS SEQRES 19 D 276 ASP VAL HIS GLU PRO CYS SER GLY ALA GLY PHE GLY LEU SEQRES 20 D 276 GLU ARG LEU LEU THR ILE ARG GLU LYS TYR SER THR VAL SEQRES 21 D 276 LYS LYS GLY GLY ALA SER ILE SER TYR LEU ASN GLY ALA SEQRES 22 D 276 LYS ILE ASN SEQRES 1 A 276 SER GLY THR VAL LYS TYR THR ASP ALA GLN ILE GLN ARG SEQRES 2 A 276 LEU ARG GLU TYR GLY ASN GLY THR TYR GLU GLN LYS VAL SEQRES 3 A 276 PHE GLU ASP LEU ALA SER ARG ASP ALA ALA PHE SER LYS SEQRES 4 A 276 GLU MET SER VAL ALA SER THR ASP ASN GLU LYS LYS ILE SEQRES 5 A 276 LYS GLY MET ILE ALA ASN PRO SER ARG HIS GLY LEU THR SEQRES 6 A 276 GLN LEU MET ASN ASP ILE ALA ASP ALA LEU VAL ALA GLU SEQRES 7 A 276 GLY PHE ILE GLU VAL ARG THR PRO ILE PHE ILE SER LYS SEQRES 8 A 276 ASP ALA LEU ALA ARG MET THR ILE THR GLU ASP LYS PRO SEQRES 9 A 276 LEU PHE LYS GLN VAL PHE TRP ILE ASP GLU LYS ARG ALA SEQRES 10 A 276 LEU ARG PRO MET LEU ALA PRO ASN LEU TYR SER VAL MET SEQRES 11 A 276 ARG ASP LEU ARG ASP HIS THR ASP GLY PRO VAL LYS ILE SEQRES 12 A 276 PHE GLU MET GLY SER CYS PHE ARG LYS GLU SER HIS SER SEQRES 13 A 276 GLY MET HIS LEU GLU GLU PHE THR MET LEU ALA LEU GLY SEQRES 14 A 276 ASP MET GLY PRO ARG GLY ASP ALA THR GLU VAL LEU LYS SEQRES 15 A 276 ASN TYR ILE SER VAL VAL MET LYS ALA ALA GLY LEU PRO SEQRES 16 A 276 ASP TYR ASP LEU VAL GLN GLU GLU SER ASP VAL TYR LYS SEQRES 17 A 276 GLU THR ILE ASP VAL GLU ILE ASN GLY GLN GLU VAL CYS SEQRES 18 A 276 SER ALA ALA VAL GLY PRO HIS TYR LEU ASP ALA ALA HIS SEQRES 19 A 276 ASP VAL HIS GLU PRO CYS SER GLY ALA GLY PHE GLY LEU SEQRES 20 A 276 GLU ARG LEU LEU THR ILE ARG GLU LYS TYR SER THR VAL SEQRES 21 A 276 LYS LYS GLY GLY ALA SER ILE SER TYR LEU ASN GLY ALA SEQRES 22 A 276 LYS ILE ASN HET ATP D 301 42 HET T7Q D 302 34 HET PEG D 303 17 HET MG D 304 1 HET MG D 305 1 HET MG D 306 1 HET GOL A 301 14 HET ATP A 302 42 HET MG A 303 1 HET MG A 304 1 HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM T7Q (2~{S})-2-AZANYL-3-(9-OXIDANYLIDENE-10~{H}-ACRIDIN-2- HETNAM 2 T7Q YL)PROPANOIC ACID HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM MG MAGNESIUM ION HETNAM GOL GLYCEROL HETSYN T7Q ACRIDONE AMINO ACID (RS1) HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 ATP 2(C10 H16 N5 O13 P3) FORMUL 4 T7Q C16 H15 N2 O3 1+ FORMUL 5 PEG C4 H10 O3 FORMUL 6 MG 5(MG 2+) FORMUL 9 GOL C3 H8 O3 FORMUL 13 HOH *466(H2 O) HELIX 1 AA1 THR D 6 GLY D 17 1 12 HELIX 2 AA2 THR D 20 LYS D 24 5 5 HELIX 3 AA3 ASP D 28 ASN D 57 1 30 HELIX 4 AA4 HIS D 61 GLU D 77 1 17 HELIX 5 AA5 LYS D 90 MET D 96 1 7 HELIX 6 AA6 PRO D 103 VAL D 108 5 6 HELIX 7 AA7 LEU D 121 ASP D 134 1 14 HELIX 8 AA8 ASP D 175 ALA D 191 1 17 HELIX 9 AA9 PRO D 226 HIS D 233 1 8 HELIX 10 AB1 LEU D 246 LYS D 255 1 10 HELIX 11 AB2 THR A 6 GLY A 17 1 12 HELIX 12 AB3 ASP A 28 ASN A 57 1 30 HELIX 13 AB4 HIS A 61 GLU A 77 1 17 HELIX 14 AB5 LYS A 90 MET A 96 1 7 HELIX 15 AB6 LEU A 104 VAL A 108 5 5 HELIX 16 AB7 LEU A 121 ASP A 134 1 14 HELIX 17 AB8 ASP A 175 ALA A 191 1 17 HELIX 18 AB9 LEU A 246 LYS A 255 1 10 SHEET 1 AA1 7 ILE D 80 GLU D 81 0 SHEET 2 AA1 7 VAL D 140 PHE D 149 1 O LYS D 141 N ILE D 80 SHEET 3 AA1 7 GLU D 161 MET D 170 -1 O MET D 170 N VAL D 140 SHEET 4 AA1 7 CYS D 239 GLY D 245 -1 O PHE D 244 N LEU D 165 SHEET 5 AA1 7 GLN D 217 VAL D 224 -1 N ALA D 223 O GLY D 241 SHEET 6 AA1 7 LYS D 207 ILE D 214 -1 N VAL D 212 O VAL D 219 SHEET 7 AA1 7 ASP D 197 SER D 203 -1 N VAL D 199 O ASP D 211 SHEET 1 AA2 2 PHE D 87 SER D 89 0 SHEET 2 AA2 2 ARG D 115 LEU D 117 -1 O ALA D 116 N ILE D 88 SHEET 1 AA3 2 TYR D 268 LEU D 269 0 SHEET 2 AA3 2 ALA D 272 LYS D 273 -1 O ALA D 272 N LEU D 269 SHEET 1 AA4 7 ILE A 80 GLU A 81 0 SHEET 2 AA4 7 VAL A 140 PHE A 149 1 O LYS A 141 N ILE A 80 SHEET 3 AA4 7 GLU A 161 MET A 170 -1 O PHE A 162 N CYS A 148 SHEET 4 AA4 7 CYS A 239 GLY A 245 -1 O PHE A 244 N LEU A 165 SHEET 5 AA4 7 GLN A 217 VAL A 224 -1 N SER A 221 O GLY A 243 SHEET 6 AA4 7 ILE A 210 ILE A 214 -1 N ILE A 210 O ALA A 222 SHEET 7 AA4 7 ASP A 197 VAL A 199 -1 N VAL A 199 O ASP A 211 SHEET 1 AA5 2 PHE A 87 SER A 89 0 SHEET 2 AA5 2 ARG A 115 LEU A 117 -1 O ALA A 116 N ILE A 88 SHEET 1 AA6 2 TYR A 268 LEU A 269 0 SHEET 2 AA6 2 ALA A 272 LYS A 273 -1 O ALA A 272 N LEU A 269 LINK PA ATP D 301 O T7Q D 302 1555 1555 1.56 LINK OE2 GLU D 218 MG MG D 304 1555 1555 2.39 LINK OE1 GLU D 218 MG MG D 305 1555 1555 2.44 LINK OG SER D 221 MG MG D 304 1555 1555 2.28 LINK O1B ATP D 301 MG MG D 304 1555 1555 1.93 LINK O2A ATP D 301 MG MG D 304 1555 1555 2.16 LINK O2G ATP D 301 MG MG D 305 1555 1555 2.21 LINK O1B ATP D 301 MG MG D 305 1555 1555 2.39 LINK O1G ATP D 301 MG MG D 306 1555 1555 2.51 LINK O2B ATP D 301 MG MG D 306 1555 1555 2.34 LINK MG MG D 304 O HOH D 425 1555 1555 2.44 LINK MG MG D 305 O HOH D 425 1555 1555 2.43 LINK MG MG D 305 O HOH D 615 1555 1555 2.38 LINK MG MG D 306 O HOH D 546 1555 1555 2.09 LINK MG MG D 306 O HOH D 613 1555 1555 2.25 LINK OE2 GLU A 218 MG MG A 303 1555 1555 2.42 LINK OG SER A 221 MG MG A 303 1555 1555 2.77 LINK O1B ATP A 302 MG MG A 303 1555 1555 2.32 LINK O2A ATP A 302 MG MG A 303 1555 1555 2.48 LINK O1G ATP A 302 MG MG A 304 1555 1555 2.56 LINK O2B ATP A 302 MG MG A 304 1555 1555 2.04 LINK MG MG A 304 O HOH A 513 1555 1555 2.18 CISPEP 1 GLY D 225 PRO D 226 0 4.62 CRYST1 110.862 110.862 113.556 90.00 90.00 90.00 I 4 16 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 0.009020 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009020 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008806 0.00000