HEADER LIGASE 11-MAR-21 7NU8 TITLE CRYSTAL STRUCTURE OF NEISSERIA GONORRHOEAE LEURS IN COMPLEX WITH THE TITLE 2 REACTION INTERMEDIATE LEU-AMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: LEUCINE--TRNA LIGASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: LEUCYL-TRNA SYNTHETASE; COMPND 5 SYNONYM: LEUCYL-TRNA SYNTHETASE,LEURS; COMPND 6 EC: 6.1.1.4; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NEISSERIA GONORRHOEAE; SOURCE 3 ORGANISM_TAXID: 485; SOURCE 4 STRAIN: NCCP11945; SOURCE 5 GENE: LEUS, NGK_0009; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA 2 (DE3) PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PETRUK KEYWDS PROTEIN-LIGAND COMPLEX, ROSSMANN FOLD, TRNA SYNTHETASE, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR L.PANG,S.V.STRELKOV,S.D.WEEKS REVDAT 3 31-JAN-24 7NU8 1 REMARK REVDAT 2 14-SEP-22 7NU8 1 JRNL REVDAT 1 31-AUG-22 7NU8 0 JRNL AUTH L.PANG,V.ZANKI,S.V.STRELKOV,A.VAN AERSCHOT,I.GRUIC-SOVULJ, JRNL AUTH 2 S.D.WEEKS JRNL TITL PARTITIONING OF THE INITIAL CATALYTIC STEPS OF LEUCYL-TRNA JRNL TITL 2 SYNTHETASE IS DRIVEN BY AN ACTIVE SITE PEPTIDE-PLANE FLIP. JRNL REF COMMUN BIOL V. 5 883 2022 JRNL REFN ESSN 2399-3642 JRNL PMID 36038645 JRNL DOI 10.1038/S42003-022-03825-8 REMARK 2 REMARK 2 RESOLUTION. 2.11 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 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) : 2.11 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 56.74 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 53790 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.860 REMARK 3 FREE R VALUE TEST SET COUNT : 2078 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 56.7400 - 5.2000 1.00 3710 150 0.1687 0.1796 REMARK 3 2 5.2000 - 4.1300 1.00 3499 163 0.1545 0.2022 REMARK 3 3 4.1300 - 3.6100 1.00 3494 146 0.1744 0.1990 REMARK 3 4 3.6100 - 3.2800 1.00 3464 127 0.2005 0.2712 REMARK 3 5 3.2800 - 3.0400 1.00 3460 125 0.2150 0.2878 REMARK 3 6 3.0400 - 2.8600 1.00 3424 139 0.2255 0.2836 REMARK 3 7 2.8600 - 2.7200 1.00 3438 137 0.2183 0.2935 REMARK 3 8 2.7200 - 2.6000 1.00 3434 137 0.2137 0.2415 REMARK 3 9 2.6000 - 2.5000 1.00 3427 137 0.2058 0.2487 REMARK 3 10 2.5000 - 2.4200 1.00 3374 138 0.2051 0.2897 REMARK 3 11 2.4200 - 2.3400 1.00 3416 137 0.2074 0.2515 REMARK 3 12 2.3400 - 2.2700 1.00 3429 125 0.2142 0.2780 REMARK 3 13 2.2700 - 2.2100 1.00 3392 127 0.2213 0.2481 REMARK 3 14 2.2100 - 2.1600 1.00 3404 142 0.2387 0.3190 REMARK 3 15 2.1600 - 2.1100 1.00 3347 148 0.2543 0.3466 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 : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.260 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.200 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 57.24 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 : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 224 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.2946 -3.4532 -31.4996 REMARK 3 T TENSOR REMARK 3 T11: 0.3432 T22: 0.3307 REMARK 3 T33: 0.3692 T12: 0.0249 REMARK 3 T13: -0.1027 T23: 0.0086 REMARK 3 L TENSOR REMARK 3 L11: 1.5285 L22: 0.9321 REMARK 3 L33: 1.2984 L12: 0.9847 REMARK 3 L13: 0.8478 L23: 0.4972 REMARK 3 S TENSOR REMARK 3 S11: 0.2807 S12: -0.0596 S13: -0.2928 REMARK 3 S21: 0.1603 S22: -0.0650 S23: -0.0281 REMARK 3 S31: 0.2731 S32: 0.0246 S33: -0.1982 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 225 THROUGH 360 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.8572 34.8407 -13.4615 REMARK 3 T TENSOR REMARK 3 T11: 0.4738 T22: 0.3887 REMARK 3 T33: 0.4413 T12: 0.0280 REMARK 3 T13: -0.1636 T23: 0.0199 REMARK 3 L TENSOR REMARK 3 L11: 3.3384 L22: 1.6479 REMARK 3 L33: 6.7032 L12: 0.1692 REMARK 3 L13: 0.3482 L23: -0.3634 REMARK 3 S TENSOR REMARK 3 S11: -0.1485 S12: -0.5275 S13: -0.0709 REMARK 3 S21: 0.2375 S22: -0.2154 S23: -0.4501 REMARK 3 S31: -0.5435 S32: -0.1894 S33: 0.3386 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 361 THROUGH 583 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.9180 13.5617 -29.3697 REMARK 3 T TENSOR REMARK 3 T11: 0.3442 T22: 0.3763 REMARK 3 T33: 0.3244 T12: -0.0488 REMARK 3 T13: -0.0415 T23: 0.0354 REMARK 3 L TENSOR REMARK 3 L11: 1.0638 L22: 0.5081 REMARK 3 L33: 1.0111 L12: -0.3166 REMARK 3 L13: 0.5048 L23: 0.2793 REMARK 3 S TENSOR REMARK 3 S11: 0.0474 S12: 0.0104 S13: 0.0218 REMARK 3 S21: -0.0703 S22: 0.0330 S23: -0.0791 REMARK 3 S31: -0.0949 S32: 0.0080 S33: -0.0753 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 584 THROUGH 876 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.0230 -16.2435 -47.2034 REMARK 3 T TENSOR REMARK 3 T11: 0.4096 T22: 0.3285 REMARK 3 T33: 0.5009 T12: -0.0325 REMARK 3 T13: -0.1146 T23: 0.0153 REMARK 3 L TENSOR REMARK 3 L11: 1.5644 L22: 0.5664 REMARK 3 L33: 1.8680 L12: -0.1228 REMARK 3 L13: 0.8163 L23: 0.1871 REMARK 3 S TENSOR REMARK 3 S11: 0.1400 S12: -0.0732 S13: -0.0897 REMARK 3 S21: 0.0572 S22: 0.0342 S23: 0.1245 REMARK 3 S31: 0.0394 S32: -0.2184 S33: -0.1995 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 7NU8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1292110429. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUN-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.980118 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57375 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.070 REMARK 200 RESOLUTION RANGE LOW (A) : 77.490 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.200 REMARK 200 R MERGE (I) : 0.07700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.07 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.70 REMARK 200 R MERGE FOR SHELL (I) : 1.15700 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: PHASER REMARK 200 STARTING MODEL: 6Q89 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HOLO PROTEIN AT 10 MG/ML IN 10 MM TRIS REMARK 280 PH 7, 100 MM NACL, 2.5 MM 2-MERCAPTOETHANOL WAS MIXED WITH 0.1 M REMARK 280 BIS-TRIS PROPANE PH 8.5, 0.1 M MGCL2, 20% (W/V) PEG 3350 AND A REMARK 280 CRYSTAL SEED STOCK IN A 0.75:1.0:0.25 (V/V) RATIO. THE SEED REMARK 280 STOCK WAS PREPARED IN THE SAME CRYSTALLIZATION BUFFER. SUITABLE REMARK 280 CRYSTALS WERE SOAKED WITH 5 MM ATP AND 5 MM L-LEUCINE IN AN REMARK 280 EQUILVALENT PRECIPITANT SOLUTION SUPPLEMENTED WITH 22% (V/V) REMARK 280 ETHYLENE GLYCOL., VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 24.39600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 113.48700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.22450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 113.48700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.39600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 41.22450 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 GLY A 0 REMARK 465 ASP A 611 REMARK 465 LYS A 612 REMARK 465 GLY A 613 REMARK 465 ARG A 614 REMARK 465 PRO A 615 REMARK 465 VAL A 616 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 GLN A 2 CG CD OE1 NE2 REMARK 470 LYS A 92 CG CD CE NZ REMARK 470 LYS A 129 CE NZ REMARK 470 LYS A 142 CE NZ REMARK 470 GLU A 145 CD OE1 OE2 REMARK 470 GLU A 169 CG CD OE1 OE2 REMARK 470 GLN A 170 CG CD OE1 NE2 REMARK 470 ASP A 173 CG OD1 OD2 REMARK 470 TRP A 177 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 177 CZ3 CH2 REMARK 470 ARG A 178 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 185 CG CD CE NZ REMARK 470 GLN A 242 CG CD OE1 NE2 REMARK 470 GLU A 245 CG CD OE1 OE2 REMARK 470 ASP A 283 CG OD1 OD2 REMARK 470 LYS A 284 CG CD CE NZ REMARK 470 LEU A 287 CD1 CD2 REMARK 470 GLU A 293 CG CD OE1 OE2 REMARK 470 VAL A 299 CG1 CG2 REMARK 470 ASP A 303 OD1 OD2 REMARK 470 THR A 306 OG1 CG2 REMARK 470 LYS A 326 CG CD CE NZ REMARK 470 TYR A 339 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 366 CD CE NZ REMARK 470 VAL A 371 CG1 CG2 REMARK 470 ASP A 373 OD1 OD2 REMARK 470 ASP A 377 CG OD1 OD2 REMARK 470 ASN A 379 CG OD1 ND2 REMARK 470 ARG A 380 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 383 CG CD OE1 OE2 REMARK 470 GLU A 389 CG CD OE1 OE2 REMARK 470 LYS A 451 CG CD CE NZ REMARK 470 MET A 475 CG SD CE REMARK 470 LYS A 498 CD CE NZ REMARK 470 LYS A 521 CD CE NZ REMARK 470 GLU A 530 CD OE1 OE2 REMARK 470 LYS A 533 CD CE NZ REMARK 470 ARG A 590 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 591 CG CD OE1 OE2 REMARK 470 ASN A 592 CG OD1 ND2 REMARK 470 ASP A 593 CG OD1 OD2 REMARK 470 LYS A 594 CG CD CE NZ REMARK 470 LYS A 597 CG CD CE NZ REMARK 470 GLU A 606 CG CD OE1 OE2 REMARK 470 PHE A 609 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ASP A 610 CG OD1 OD2 REMARK 470 SER A 617 OG REMARK 470 LYS A 621 CG CD CE NZ REMARK 470 ASP A 623 CG OD1 OD2 REMARK 470 LEU A 625 CG CD1 CD2 REMARK 470 VAL A 627 CG1 CG2 REMARK 470 ILE A 629 CG1 CG2 CD1 REMARK 470 LYS A 637 CG CD CE NZ REMARK 470 LYS A 639 CG CD CE NZ REMARK 470 LYS A 703 CE NZ REMARK 470 LYS A 714 CD CE NZ REMARK 470 LYS A 756 CD CE NZ REMARK 470 GLU A 762 CD OE1 OE2 REMARK 470 VAL A 813 CG1 CG2 REMARK 470 GLU A 818 CG CD OE1 OE2 REMARK 470 VAL A 823 CG1 CG2 REMARK 470 LYS A 826 CG CD CE NZ REMARK 470 ASP A 836 CG OD1 OD2 REMARK 470 LYS A 839 CG CD CE NZ REMARK 470 GLU A 850 CG CD OE1 OE2 REMARK 470 VAL A 853 CG1 CG2 REMARK 470 LYS A 854 CG CD CE NZ REMARK 470 GLU A 857 CD OE1 OE2 REMARK 470 LYS A 859 CG CD CE NZ REMARK 470 LYS A 862 CG CD CE NZ REMARK 470 LYS A 863 CG CD CE NZ REMARK 470 VAL A 875 CG1 CG2 REMARK 470 VAL A 876 CG1 CG2 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 SER A 179 -36.61 -132.84 REMARK 500 HIS A 350 16.67 -141.20 REMARK 500 MET A 475 57.42 -95.75 REMARK 500 TRP A 512 5.42 -150.38 REMARK 500 SER A 519 70.31 -152.00 REMARK 500 ILE A 549 -77.20 -102.97 REMARK 500 LYS A 594 37.04 -81.40 REMARK 500 PHE A 609 -124.97 -135.90 REMARK 500 ALA A 622 -75.57 -112.85 REMARK 500 SER A 630 -159.33 -90.20 REMARK 500 ARG A 870 -52.92 -123.62 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 ZN A1004 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 449 SG REMARK 620 2 CYS A 452 SG 114.4 REMARK 620 3 CYS A 490 SG 105.2 108.8 REMARK 620 4 CYS A 493 SG 104.5 114.1 109.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1005 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1164 O REMARK 620 2 HOH A1298 O 69.8 REMARK 620 N 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7NTY RELATED DB: PDB REMARK 900 RELATED ID: 7NU0 RELATED DB: PDB REMARK 900 RELATED ID: 7NU2 RELATED DB: PDB REMARK 900 RELATED ID: 7NU3 RELATED DB: PDB REMARK 900 RELATED ID: 7NU4 RELATED DB: PDB REMARK 900 RELATED ID: 7NU5 RELATED DB: PDB REMARK 900 RELATED ID: 7NU6 RELATED DB: PDB REMARK 900 RELATED ID: 7NU7 RELATED DB: PDB DBREF 7NU8 A 1 876 UNP B4RNT1 SYL_NEIG2 1 876 SEQADV 7NU8 GLY A 0 UNP B4RNT1 EXPRESSION TAG SEQADV 7NU8 ASN A 454 UNP B4RNT1 ASP 454 CONFLICT SEQADV 7NU8 ILE A 508 UNP B4RNT1 MET 508 CONFLICT SEQRES 1 A 877 GLY MET GLN GLU HIS TYR GLN PRO ALA ALA ILE GLU PRO SEQRES 2 A 877 ALA ALA GLN LYS LYS TRP ASP ASP ALA ARG ILE SER ASN SEQRES 3 A 877 VAL SER GLU ASP ALA SER LYS PRO LYS TYR TYR CYS LEU SEQRES 4 A 877 SER MET PHE PRO TYR PRO SER GLY LYS LEU HIS MET GLY SEQRES 5 A 877 HIS VAL ARG ASN TYR THR ILE GLY ASP VAL LEU SER ARG SEQRES 6 A 877 PHE LYS LEU LEU ASN GLY PHE ASN VAL MET GLN PRO MET SEQRES 7 A 877 GLY TRP ASP ALA PHE GLY MET PRO ALA GLU ASN ALA ALA SEQRES 8 A 877 MET LYS ASN ASN VAL ALA PRO ALA ALA TRP THR TYR ASP SEQRES 9 A 877 ASN ILE GLU TYR MET LYS THR GLN LEU LYS SER LEU GLY SEQRES 10 A 877 PHE ALA VAL ASP TRP GLU ARG GLU VAL ALA THR CYS LYS SEQRES 11 A 877 PRO GLU TYR TYR ARG TRP GLU GLN TRP LEU PHE THR LYS SEQRES 12 A 877 LEU PHE GLU LYS GLY ILE VAL TYR ARG LYS ASN GLY THR SEQRES 13 A 877 VAL ASN TRP ASP PRO VAL ASP GLN THR VAL LEU ALA ASN SEQRES 14 A 877 GLU GLN VAL ILE ASP GLY ARG GLY TRP ARG SER GLY ALA SEQRES 15 A 877 LEU ILE GLU LYS ARG GLU ILE PRO MET TYR TYR PHE LYS SEQRES 16 A 877 ILE THR ASP TYR ALA GLU GLU LEU LEU ASN ASP LEU ASP SEQRES 17 A 877 LYS LEU GLU HIS TRP PRO GLU GLN VAL LYS THR MET GLN SEQRES 18 A 877 ARG ASN TRP ILE GLY LYS SER ARG GLY MET THR VAL ARG SEQRES 19 A 877 PHE ALA VAL SER ASP ASP SER LYS GLN GLY LEU GLU GLY SEQRES 20 A 877 ASP TYR ALA LYS PHE LEU GLN VAL TYR THR THR ARG PRO SEQRES 21 A 877 ASP THR LEU MET GLY ALA THR TYR VAL ALA VAL ALA ALA SEQRES 22 A 877 GLU HIS PRO LEU ALA THR ALA ALA ALA ALA ASP LYS PRO SEQRES 23 A 877 GLU LEU GLN ALA PHE ILE ALA GLU CYS LYS ALA GLY SER SEQRES 24 A 877 VAL ALA GLU ALA ASP MET ALA THR MET GLU LYS LYS GLY SEQRES 25 A 877 VAL PRO THR GLY ARG TYR VAL VAL ASN PRO LEU ASN GLY SEQRES 26 A 877 ASP LYS LEU GLU VAL TRP ILE ALA ASN TYR VAL LEU TRP SEQRES 27 A 877 GLY TYR GLY ASP GLY ALA VAL MET ALA VAL PRO ALA HIS SEQRES 28 A 877 ASP GLU ARG ASP PHE GLU PHE ALA ALA LYS TYR ASN LEU SEQRES 29 A 877 PRO LYS LYS GLN VAL ILE ALA VAL GLY ASP ASN ALA PHE SEQRES 30 A 877 ASP ALA ASN ARG TRP GLN GLU TRP TYR GLY ASP LYS GLU SEQRES 31 A 877 ASN GLY VAL LEU VAL ASN SER GLY ASP LEU ASP GLY LEU SEQRES 32 A 877 ASP PHE GLN THR ALA PHE ASP ALA VAL ALA ALA LYS LEU SEQRES 33 A 877 GLN SER GLN GLY ALA GLY GLU PRO LYS THR GLN TYR ARG SEQRES 34 A 877 LEU ARG ASP TRP GLY ILE SER ARG GLN ARG TYR TRP GLY SEQRES 35 A 877 CYS PRO ILE PRO ILE VAL HIS CYS GLU LYS CYS GLY ASN SEQRES 36 A 877 VAL PRO VAL PRO ALA ASP GLN LEU PRO VAL VAL LEU PRO SEQRES 37 A 877 GLU ASN VAL VAL PRO ASP GLY MET GLY SER PRO LEU ALA SEQRES 38 A 877 LYS MET PRO GLU PHE TYR GLU THR SER CYS PRO CYS CYS SEQRES 39 A 877 GLY GLY ALA ALA LYS ARG GLU THR ASP THR MET ASP THR SEQRES 40 A 877 PHE ILE GLU SER SER TRP TYR PHE PHE ARG TYR MET SER SEQRES 41 A 877 PRO LYS PHE SER ASP GLY MET VAL SER ALA GLU SER ALA SEQRES 42 A 877 LYS TYR TRP GLY ALA VAL ASP GLN TYR ILE GLY GLY ILE SEQRES 43 A 877 GLU HIS ALA ILE LEU HIS LEU LEU TYR ALA ARG PHE PHE SEQRES 44 A 877 THR LYS LEU MET ARG ASP GLU GLY LEU VAL ASN VAL ASP SEQRES 45 A 877 GLU PRO PHE GLU ARG LEU LEU THR GLN GLY MET VAL VAL SEQRES 46 A 877 CYS GLU THR TYR TYR ARG GLU ASN ASP LYS GLY GLY LYS SEQRES 47 A 877 ASP TRP ILE ASN PRO ALA ASP VAL GLU LEU THR PHE ASP SEQRES 48 A 877 ASP LYS GLY ARG PRO VAL SER ALA VAL LEU LYS ALA ASP SEQRES 49 A 877 GLY LEU PRO VAL VAL ILE SER GLY THR GLU LYS MET SER SEQRES 50 A 877 LYS SER LYS ASN ASN GLY VAL ASP PRO GLN GLU LEU ILE SEQRES 51 A 877 ASN ALA TYR GLY ALA ASP THR ALA ARG LEU PHE MET MET SEQRES 52 A 877 PHE ALA ALA PRO PRO GLU GLN SER LEU GLU TRP SER ASP SEQRES 53 A 877 SER GLY VAL GLU GLY ALA HIS ARG PHE LEU ARG ARG LEU SEQRES 54 A 877 TRP ARG THR VAL TYR GLU TYR LEU LYS GLN GLY GLY ALA SEQRES 55 A 877 VAL LYS ALA PHE ALA GLY ASN GLN ASP GLY LEU SER LYS SEQRES 56 A 877 GLU LEU LYS ASP LEU ARG HIS LYS LEU HIS SER THR THR SEQRES 57 A 877 ALA LYS VAL SER ASP ASP TYR GLY ARG ARG GLN GLN PHE SEQRES 58 A 877 ASN THR ALA ILE ALA ALA VAL MET GLU LEU LEU ASN GLN SEQRES 59 A 877 TYR ASP LYS THR ASP THR GLY SER GLU GLN GLY ARG ALA SEQRES 60 A 877 VAL ALA GLN GLU VAL LEU GLU ALA ALA VAL ARG LEU LEU SEQRES 61 A 877 TRP PRO ILE VAL PRO HIS ILE CYS GLU THR LEU TRP SER SEQRES 62 A 877 GLU LEU ASN GLY ALA LYS LEU TRP GLU ALA GLY TRP PRO SEQRES 63 A 877 THR VAL ASP GLU ALA ALA LEU VAL LYS SER GLU ILE GLU SEQRES 64 A 877 VAL MET VAL GLN VAL ASN GLY LYS LEU ARG GLY LYS ILE SEQRES 65 A 877 THR VAL ALA ALA ASP ALA SER LYS ALA ASP LEU GLU ALA SEQRES 66 A 877 ALA ALA LEU ALA ASN GLU GLY ALA VAL LYS PHE MET GLU SEQRES 67 A 877 GLY LYS PRO ALA LYS LYS ILE ILE VAL VAL PRO GLY ARG SEQRES 68 A 877 LEU VAL ASN ILE VAL VAL HET EDO A1001 4 HET USB A1002 31 HET ATP A1003 31 HET ZN A1004 1 HET MG A1005 1 HETNAM EDO 1,2-ETHANEDIOL HETNAM USB [[(2~{R},3~{S},4~{R},5~{R})-5-(6-AMINOPURIN-9-YL)-3,4- HETNAM 2 USB BIS(OXIDANYL)OXOLAN-2-YL]METHOXY-OXIDANYL-PHOSPHORYL] HETNAM 3 USB (2~{S})-2-AZANYL-4-METHYL-PENTANOATE HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 EDO C2 H6 O2 FORMUL 3 USB C16 H25 N6 O8 P FORMUL 4 ATP C10 H16 N5 O13 P3 FORMUL 5 ZN ZN 2+ FORMUL 6 MG MG 2+ FORMUL 7 HOH *201(H2 O) HELIX 1 AA1 GLN A 6 ARG A 22 1 17 HELIX 2 AA2 HIS A 49 ASN A 69 1 21 HELIX 3 AA3 GLY A 83 ASN A 94 1 12 HELIX 4 AA4 ALA A 96 LEU A 115 1 20 HELIX 5 AA5 ASP A 120 GLU A 124 5 5 HELIX 6 AA6 LYS A 129 LYS A 146 1 18 HELIX 7 AA7 ALA A 167 GLU A 169 5 3 HELIX 8 AA8 ILE A 195 ASP A 197 5 3 HELIX 9 AA9 TYR A 198 ASP A 205 1 8 HELIX 10 AB1 LEU A 206 LEU A 209 5 4 HELIX 11 AB2 PRO A 213 GLY A 225 1 13 HELIX 12 AB3 ARG A 258 ALA A 265 5 8 HELIX 13 AB4 HIS A 274 ALA A 281 1 8 HELIX 14 AB5 LYS A 284 ALA A 296 1 13 HELIX 15 AB6 ALA A 300 THR A 306 1 7 HELIX 16 AB7 ASP A 351 ASN A 362 1 12 HELIX 17 AB8 GLN A 382 ASP A 387 5 6 HELIX 18 AB9 SER A 396 ASP A 400 5 5 HELIX 19 AC1 ASP A 403 GLN A 418 1 16 HELIX 20 AC2 PRO A 458 LEU A 462 5 5 HELIX 21 AC3 SER A 477 LYS A 481 5 5 HELIX 22 AC4 MET A 482 TYR A 486 1 5 HELIX 23 AC5 THR A 506 SER A 511 1 6 HELIX 24 AC6 TRP A 512 TYR A 517 1 6 HELIX 25 AC7 SER A 528 GLY A 536 1 9 HELIX 26 AC8 GLY A 544 ALA A 548 5 5 HELIX 27 AC9 ILE A 549 GLU A 565 1 17 HELIX 28 AD1 ASN A 601 ALA A 603 5 3 HELIX 29 AD2 ASP A 644 GLY A 653 1 10 HELIX 30 AD3 GLY A 653 ALA A 664 1 12 HELIX 31 AD4 SER A 674 GLN A 698 1 25 HELIX 32 AD5 SER A 713 ARG A 736 1 24 HELIX 33 AD6 GLN A 739 LYS A 756 1 18 HELIX 34 AD7 SER A 761 TRP A 780 1 20 HELIX 35 AD8 VAL A 783 ASN A 795 1 13 HELIX 36 AD9 LYS A 798 GLY A 803 1 6 HELIX 37 AE1 ASP A 808 VAL A 813 5 6 HELIX 38 AE2 SER A 838 ALA A 848 1 11 HELIX 39 AE3 ASN A 849 PHE A 855 1 7 SHEET 1 AA1 4 ASN A 72 MET A 74 0 SHEET 2 AA1 4 LYS A 34 SER A 39 1 N TYR A 35 O MET A 74 SHEET 3 AA1 4 VAL A 538 ILE A 542 1 O GLN A 540 N LEU A 38 SHEET 4 AA1 4 PHE A 574 LEU A 578 1 O GLU A 575 N VAL A 538 SHEET 1 AA2 2 GLY A 78 TRP A 79 0 SHEET 2 AA2 2 VAL A 125 ALA A 126 1 O VAL A 125 N TRP A 79 SHEET 1 AA3 4 THR A 164 LEU A 166 0 SHEET 2 AA3 4 VAL A 149 ASP A 159 -1 N ASP A 159 O THR A 164 SHEET 3 AA3 4 GLU A 184 PHE A 193 -1 O GLU A 184 N TRP A 158 SHEET 4 AA3 4 TRP A 432 GLY A 433 -1 O TRP A 432 N PHE A 193 SHEET 1 AA4 2 VAL A 171 ILE A 172 0 SHEET 2 AA4 2 ARG A 175 GLY A 176 -1 O ARG A 175 N ILE A 172 SHEET 1 AA5 6 PHE A 251 THR A 256 0 SHEET 2 AA5 6 LYS A 226 VAL A 236 -1 N MET A 230 O THR A 256 SHEET 3 AA5 6 GLY A 311 VAL A 319 -1 O VAL A 319 N ALA A 235 SHEET 4 AA5 6 LYS A 326 ALA A 332 -1 O LEU A 327 N VAL A 318 SHEET 5 AA5 6 TYR A 267 VAL A 270 1 N VAL A 270 O TRP A 330 SHEET 6 AA5 6 ALA A 343 ALA A 346 -1 O VAL A 344 N ALA A 269 SHEET 1 AA6 3 PHE A 251 THR A 256 0 SHEET 2 AA6 3 LYS A 226 VAL A 236 -1 N MET A 230 O THR A 256 SHEET 3 AA6 3 GLY A 421 TYR A 427 -1 O GLU A 422 N THR A 231 SHEET 1 AA7 2 ILE A 369 ALA A 370 0 SHEET 2 AA7 2 VAL A 392 LEU A 393 -1 O VAL A 392 N ALA A 370 SHEET 1 AA8 2 SER A 435 ARG A 436 0 SHEET 2 AA8 2 THR A 503 MET A 504 -1 O THR A 503 N ARG A 436 SHEET 1 AA9 4 GLY A 453 PRO A 456 0 SHEET 2 AA9 4 ILE A 446 CYS A 449 -1 N VAL A 447 O VAL A 455 SHEET 3 AA9 4 ALA A 496 ARG A 499 -1 O LYS A 498 N HIS A 448 SHEET 4 AA9 4 GLU A 487 SER A 489 -1 N THR A 488 O ALA A 497 SHEET 1 AB1 3 LYS A 597 ILE A 600 0 SHEET 2 AB1 3 VAL A 583 GLU A 591 -1 N TYR A 588 O ILE A 600 SHEET 3 AB1 3 VAL A 628 LYS A 634 -1 O VAL A 628 N TYR A 589 SHEET 1 AB2 3 LYS A 597 ILE A 600 0 SHEET 2 AB2 3 VAL A 583 GLU A 591 -1 N TYR A 588 O ILE A 600 SHEET 3 AB2 3 LEU A 671 GLU A 672 1 O LEU A 671 N VAL A 584 SHEET 1 AB3 2 VAL A 605 LEU A 607 0 SHEET 2 AB3 2 ALA A 618 LEU A 620 -1 O VAL A 619 N GLU A 606 SHEET 1 AB4 4 LYS A 826 VAL A 833 0 SHEET 2 AB4 4 ILE A 817 VAL A 823 -1 N VAL A 821 O GLY A 829 SHEET 3 AB4 4 LEU A 871 VAL A 875 1 O VAL A 872 N GLN A 822 SHEET 4 AB4 4 LYS A 863 VAL A 867 -1 N LYS A 863 O VAL A 875 LINK SG CYS A 449 ZN ZN A1004 1555 1555 2.37 LINK SG CYS A 452 ZN ZN A1004 1555 1555 2.30 LINK SG CYS A 490 ZN ZN A1004 1555 1555 2.39 LINK SG CYS A 493 ZN ZN A1004 1555 1555 2.39 LINK MG MG A1005 O HOH A1164 1555 1555 2.10 LINK MG MG A1005 O HOH A1298 1555 1555 1.99 CISPEP 1 LEU A 462 PRO A 463 0 3.52 CRYST1 48.792 82.449 226.974 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 0.020495 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012129 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004406 0.00000