HEADER TRANSFERASE 30-APR-19 6RKQ TITLE CRYSTAL STRUCTURE OF TGT IN COMPLEX WITH N2-METHYL-8-(PROP-1-YN-1-YL)- TITLE 2 3H,7H,8H-IMIDAZO[4,5-G]QUINAZOLINE-2,6-DIAMINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: QUEUINE TRNA-RIBOSYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GUANINE INSERTION ENZYME,TRNA-GUANINE TRANSGLYCOSYLASE; COMPND 5 EC: 2.4.2.29; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ZYMOMONAS MOBILIS SUBSP. MOBILIS (STRAIN ATCC SOURCE 3 31821 / ZM4 / CP4); SOURCE 4 ORGANISM_TAXID: 264203; SOURCE 5 STRAIN: ATCC 31821 / ZM4 / CP4; SOURCE 6 VARIANT: ATCC 31821/ ZM4 / CP4; SOURCE 7 GENE: TGT, ZMO0363; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_VARIANT: CODONPLUS; SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PPR-IBA2 KEYWDS TGT, TRNA, GUANINE EXCHANGE ENZYME, PROTEIN INTERFACE, TRANSFERASE, KEYWDS 2 TRANSGLYCOSYLASE EXPDTA X-RAY DIFFRACTION AUTHOR E.HASSAAN,A.HEINE,G.KLEBE REVDAT 3 24-JAN-24 6RKQ 1 REMARK REVDAT 2 16-DEC-20 6RKQ 1 JRNL REVDAT 1 03-JUN-20 6RKQ 0 JRNL AUTH E.HASSAAN,C.HOHN,F.R.EHRMANN,F.W.GOETZKE,L.MOVSISYAN, JRNL AUTH 2 T.HUFNER-WULSDORF,M.SEBASTIANI,A.HARTSCH,K.REUTER, JRNL AUTH 3 F.DIEDERICH,G.KLEBE JRNL TITL FRAGMENT SCREENING HIT DRAWS ATTENTION TO A NOVEL TRANSIENT JRNL TITL 2 POCKET ADJACENT TO THE RECOGNITION SITE OF THE JRNL TITL 3 TRNA-MODIFYING ENZYME TGT. JRNL REF J.MED.CHEM. V. 63 6802 2020 JRNL REFN ISSN 0022-2623 JRNL PMID 32515955 JRNL DOI 10.1021/ACS.JMEDCHEM.0C00115 REMARK 2 REMARK 2 RESOLUTION. 1.67 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) 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) : 1.67 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.03 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 47606 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2380 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 43.0473 - 4.2789 0.98 2747 145 0.1584 0.1852 REMARK 3 2 4.2789 - 3.3967 0.98 2675 141 0.1538 0.1516 REMARK 3 3 3.3967 - 2.9675 0.99 2695 142 0.1661 0.2136 REMARK 3 4 2.9675 - 2.6962 0.99 2697 142 0.1628 0.2062 REMARK 3 5 2.6962 - 2.5030 0.98 2650 139 0.1635 0.2046 REMARK 3 6 2.5030 - 2.3554 0.99 2692 142 0.1544 0.1922 REMARK 3 7 2.3554 - 2.2375 0.99 2650 139 0.1549 0.1863 REMARK 3 8 2.2375 - 2.1401 1.00 2707 143 0.1557 0.1980 REMARK 3 9 2.1401 - 2.0577 0.99 2662 140 0.1571 0.1952 REMARK 3 10 2.0577 - 1.9867 0.98 2646 139 0.1546 0.2229 REMARK 3 11 1.9867 - 1.9246 0.98 2649 140 0.1729 0.2100 REMARK 3 12 1.9246 - 1.8695 0.99 2679 141 0.1856 0.2299 REMARK 3 13 1.8695 - 1.8203 0.99 2666 140 0.1832 0.1967 REMARK 3 14 1.8203 - 1.7759 1.00 2681 141 0.1923 0.2504 REMARK 3 15 1.7759 - 1.7355 0.99 2653 140 0.1988 0.2339 REMARK 3 16 1.7355 - 1.6986 1.00 2689 141 0.2251 0.2796 REMARK 3 17 1.6986 - 1.6646 0.89 2388 125 0.2748 0.3064 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.500 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 : 0.009 2944 REMARK 3 ANGLE : 0.985 3976 REMARK 3 CHIRALITY : 0.054 421 REMARK 3 PLANARITY : 0.007 544 REMARK 3 DIHEDRAL : 19.235 1782 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 10 THROUGH 108 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.1640 -0.0075 89.7315 REMARK 3 T TENSOR REMARK 3 T11: 0.2691 T22: 0.2292 REMARK 3 T33: 0.2341 T12: 0.0299 REMARK 3 T13: 0.0038 T23: -0.0249 REMARK 3 L TENSOR REMARK 3 L11: 0.7524 L22: 0.0382 REMARK 3 L33: 0.3202 L12: -0.0716 REMARK 3 L13: 0.0452 L23: -0.0744 REMARK 3 S TENSOR REMARK 3 S11: -0.0322 S12: -0.1315 S13: 0.0551 REMARK 3 S21: 0.1941 S22: 0.0348 S23: -0.0164 REMARK 3 S31: 0.0311 S32: -0.0116 S33: 0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 109 THROUGH 133 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.8000 22.6810 98.3757 REMARK 3 T TENSOR REMARK 3 T11: 0.5128 T22: 0.3380 REMARK 3 T33: 0.4600 T12: 0.0491 REMARK 3 T13: -0.0626 T23: -0.0890 REMARK 3 L TENSOR REMARK 3 L11: 0.4813 L22: 0.0370 REMARK 3 L33: 0.1588 L12: 0.0359 REMARK 3 L13: 0.0670 L23: -0.0670 REMARK 3 S TENSOR REMARK 3 S11: -0.0611 S12: 0.1376 S13: 0.5121 REMARK 3 S21: 0.2004 S22: 0.0691 S23: -0.0947 REMARK 3 S31: -0.2540 S32: 0.0107 S33: 0.0226 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 134 THROUGH 158 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.2282 8.9415 101.4385 REMARK 3 T TENSOR REMARK 3 T11: 0.4242 T22: 0.3539 REMARK 3 T33: 0.2914 T12: 0.0477 REMARK 3 T13: 0.0201 T23: -0.0742 REMARK 3 L TENSOR REMARK 3 L11: 0.0821 L22: 0.0499 REMARK 3 L33: 0.1462 L12: -0.0246 REMARK 3 L13: 0.0901 L23: 0.0315 REMARK 3 S TENSOR REMARK 3 S11: -0.0295 S12: -0.2362 S13: 0.3352 REMARK 3 S21: 0.3499 S22: 0.0507 S23: -0.0815 REMARK 3 S31: -0.1187 S32: -0.0373 S33: 0.0002 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 159 THROUGH 230 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.7833 8.7346 104.5382 REMARK 3 T TENSOR REMARK 3 T11: 0.4151 T22: 0.3502 REMARK 3 T33: 0.2844 T12: 0.0345 REMARK 3 T13: -0.0687 T23: -0.1080 REMARK 3 L TENSOR REMARK 3 L11: 0.2548 L22: 0.2565 REMARK 3 L33: 0.3043 L12: -0.1952 REMARK 3 L13: -0.0724 L23: 0.1661 REMARK 3 S TENSOR REMARK 3 S11: -0.0623 S12: -0.4271 S13: 0.1603 REMARK 3 S21: 0.4942 S22: 0.1165 S23: 0.0114 REMARK 3 S31: 0.0281 S32: 0.0063 S33: 0.0179 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 231 THROUGH 284 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.5919 6.1479 89.1101 REMARK 3 T TENSOR REMARK 3 T11: 0.1562 T22: 0.1903 REMARK 3 T33: 0.2434 T12: 0.0218 REMARK 3 T13: -0.0353 T23: -0.0283 REMARK 3 L TENSOR REMARK 3 L11: 0.2713 L22: 0.3440 REMARK 3 L33: 0.3150 L12: -0.0613 REMARK 3 L13: -0.3049 L23: 0.1755 REMARK 3 S TENSOR REMARK 3 S11: -0.0136 S12: -0.1356 S13: 0.2545 REMARK 3 S21: 0.0732 S22: 0.0732 S23: -0.1342 REMARK 3 S31: -0.0423 S32: 0.0226 S33: 0.0014 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 285 THROUGH 383 ) REMARK 3 ORIGIN FOR THE GROUP (A): 13.7538 2.6594 69.0928 REMARK 3 T TENSOR REMARK 3 T11: 0.2080 T22: 0.2788 REMARK 3 T33: 0.2724 T12: 0.0092 REMARK 3 T13: 0.0286 T23: 0.0097 REMARK 3 L TENSOR REMARK 3 L11: 0.2130 L22: 0.4039 REMARK 3 L33: 0.4790 L12: -0.0821 REMARK 3 L13: 0.4348 L23: -0.1152 REMARK 3 S TENSOR REMARK 3 S11: -0.0409 S12: 0.1403 S13: 0.0492 REMARK 3 S21: -0.0475 S22: 0.0026 S23: -0.0904 REMARK 3 S31: 0.0249 S32: 0.1609 S33: -0.0000 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 6RKQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-MAY-19. REMARK 100 THE DEPOSITION ID IS D_1292100943. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-AUG-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47621 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.665 REMARK 200 RESOLUTION RANGE LOW (A) : 45.186 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04700 REMARK 200 FOR THE DATA SET : 14.0800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.67 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.67 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 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 REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4LBU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 13% PEG 8000, 100MM MES, 1MM DTT, 10% REMARK 280 DMSO, PH 5.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 X+1/2,Y+1/2,Z 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 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 1.000000 0.000000 0.000000 45.25250 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.40950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 45.25250 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 32.40950 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 -7.75461 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 142.72349 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 A 112 REMARK 465 SER A 113 REMARK 465 PRO A 160 REMARK 465 TYR A 161 REMARK 465 PRO A 165 REMARK 465 ARG A 384 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 ASP A 10 CG OD1 OD2 REMARK 470 ARG A 11 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 81 CD OE1 OE2 REMARK 470 LYS A 85 CG CD CE NZ REMARK 470 LYS A 116 CG CD CE NZ REMARK 470 GLN A 117 CG CD OE1 NE2 REMARK 470 LYS A 125 CG CD CE NZ REMARK 470 LEU A 128 CG CD1 CD2 REMARK 470 ASP A 129 CG OD1 OD2 REMARK 470 SER A 131 OG REMARK 470 ARG A 132 CG CD NE CZ NH1 NH2 REMARK 470 ALA A 163 CB REMARK 470 THR A 164 OG1 CG2 REMARK 470 SER A 166 CB OG REMARK 470 ARG A 167 CD NE CZ NH1 NH2 REMARK 470 SER A 170 CB OG REMARK 470 LYS A 190 CG CD CE NZ REMARK 470 GLU A 191 CG CD OE1 OE2 REMARK 470 GLN A 213 CG CD OE1 NE2 REMARK 470 GLU A 220 OE1 OE2 REMARK 470 ARG A 242 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 264 CE NZ REMARK 470 ASN A 301 ND2 REMARK 470 ARG A 306 CZ NH1 NH2 REMARK 470 GLN A 375 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 OE1 GLU A 273 HH12 ARG A 378 1.54 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 PHE A 14 111.52 -165.29 REMARK 500 ALA A 48 35.42 -94.02 REMARK 500 GLN A 203 -167.26 -120.32 REMARK 500 SER A 205 -134.31 60.00 REMARK 500 CYS A 281 140.73 -173.37 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 A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 318 SG REMARK 620 2 CYS A 320 SG 105.9 REMARK 620 3 CYS A 323 SG 114.5 116.2 REMARK 620 4 HIS A 349 ND1 105.1 115.0 99.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K75 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DMS A 404 DBREF 6RKQ A 10 384 UNP P28720 TGT_ZYMMO 10 384 SEQADV 6RKQ LYS A 312 UNP P28720 THR 312 CONFLICT SEQRES 1 A 375 ASP ARG PRO ARG PHE SER PHE SER ILE ALA ALA ARG GLU SEQRES 2 A 375 GLY LYS ALA ARG THR GLY THR ILE GLU MET LYS ARG GLY SEQRES 3 A 375 VAL ILE ARG THR PRO ALA PHE MET PRO VAL GLY THR ALA SEQRES 4 A 375 ALA THR VAL LYS ALA LEU LYS PRO GLU THR VAL ARG ALA SEQRES 5 A 375 THR GLY ALA ASP ILE ILE LEU GLY ASN THR TYR HIS LEU SEQRES 6 A 375 MET LEU ARG PRO GLY ALA GLU ARG ILE ALA LYS LEU GLY SEQRES 7 A 375 GLY LEU HIS SER PHE MET GLY TRP ASP ARG PRO ILE LEU SEQRES 8 A 375 THR ASP SER GLY GLY TYR GLN VAL MET SER LEU SER SER SEQRES 9 A 375 LEU THR LYS GLN SER GLU GLU GLY VAL THR PHE LYS SER SEQRES 10 A 375 HIS LEU ASP GLY SER ARG HIS MET LEU SER PRO GLU ARG SEQRES 11 A 375 SER ILE GLU ILE GLN HIS LEU LEU GLY SER ASP ILE VAL SEQRES 12 A 375 MET ALA PHE ASP GLU CYS THR PRO TYR PRO ALA THR PRO SEQRES 13 A 375 SER ARG ALA ALA SER SER MET GLU ARG SER MET ARG TRP SEQRES 14 A 375 ALA LYS ARG SER ARG ASP ALA PHE ASP SER ARG LYS GLU SEQRES 15 A 375 GLN ALA GLU ASN ALA ALA LEU PHE GLY ILE GLN GLN GLY SEQRES 16 A 375 SER VAL PHE GLU ASN LEU ARG GLN GLN SER ALA ASP ALA SEQRES 17 A 375 LEU ALA GLU ILE GLY PHE ASP GLY TYR ALA VAL GLY GLY SEQRES 18 A 375 LEU ALA VAL GLY GLU GLY GLN ASP GLU MET PHE ARG VAL SEQRES 19 A 375 LEU ASP PHE SER VAL PRO MET LEU PRO ASP ASP LYS PRO SEQRES 20 A 375 HIS TYR LEU MET GLY VAL GLY LYS PRO ASP ASP ILE VAL SEQRES 21 A 375 GLY ALA VAL GLU ARG GLY ILE ASP MET PHE ASP CYS VAL SEQRES 22 A 375 LEU PRO THR ARG SER GLY ARG ASN GLY GLN ALA PHE THR SEQRES 23 A 375 TRP ASP GLY PRO ILE ASN ILE ARG ASN ALA ARG PHE SER SEQRES 24 A 375 GLU ASP LEU LYS PRO LEU ASP SER GLU CYS HIS CYS ALA SEQRES 25 A 375 VAL CYS GLN LYS TRP SER ARG ALA TYR ILE HIS HIS LEU SEQRES 26 A 375 ILE ARG ALA GLY GLU ILE LEU GLY ALA MET LEU MET THR SEQRES 27 A 375 GLU HIS ASN ILE ALA PHE TYR GLN GLN LEU MET GLN LYS SEQRES 28 A 375 ILE ARG ASP SER ILE SER GLU GLY ARG PHE SER GLN PHE SEQRES 29 A 375 ALA GLN ASP PHE ARG ALA ARG TYR PHE ALA ARG HET ZN A 401 1 HET K75 A 402 19 HET GOL A 403 6 HET DMS A 404 4 HETNAM ZN ZINC ION HETNAM K75 (8~{R})-~{N}2-METHYL-8-PROP-1-YNYL-7,8-DIHYDRO-3~{H}- HETNAM 2 K75 IMIDAZO[4,5-G]QUINAZOLINE-2,6-DIAMINE HETNAM GOL GLYCEROL HETNAM DMS DIMETHYL SULFOXIDE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ZN ZN 2+ FORMUL 3 K75 C13 H14 N6 FORMUL 4 GOL C3 H8 O3 FORMUL 5 DMS C2 H6 O S FORMUL 6 HOH *186(H2 O) HELIX 1 AA1 LYS A 55 THR A 62 1 8 HELIX 2 AA2 THR A 71 ARG A 77 1 7 HELIX 3 AA3 GLY A 79 LEU A 86 1 8 HELIX 4 AA4 GLY A 88 GLY A 94 1 7 HELIX 5 AA5 GLY A 104 LEU A 111 1 8 HELIX 6 AA6 SER A 136 GLY A 148 1 13 HELIX 7 AA7 ARG A 167 SER A 188 1 22 HELIX 8 AA8 ARG A 189 ALA A 196 1 8 HELIX 9 AA9 PHE A 207 GLY A 222 1 16 HELIX 10 AB1 GLY A 236 VAL A 248 1 13 HELIX 11 AB2 PRO A 249 LEU A 251 5 3 HELIX 12 AB3 LYS A 264 GLU A 273 1 10 HELIX 13 AB4 VAL A 282 ASN A 290 1 9 HELIX 14 AB5 ASN A 304 SER A 308 5 5 HELIX 15 AB6 CYS A 320 TRP A 326 1 7 HELIX 16 AB7 SER A 327 ALA A 337 1 11 HELIX 17 AB8 GLU A 339 GLU A 367 1 29 HELIX 18 AB9 ARG A 369 PHE A 382 1 14 SHEET 1 AA1 3 PHE A 14 GLU A 22 0 SHEET 2 AA1 3 ALA A 25 MET A 32 -1 O GLU A 31 N SER A 15 SHEET 3 AA1 3 GLY A 35 THR A 39 -1 O ILE A 37 N ILE A 30 SHEET 1 AA2 8 ALA A 41 MET A 43 0 SHEET 2 AA2 8 MET A 278 ASP A 280 1 O PHE A 279 N MET A 43 SHEET 3 AA2 8 HIS A 257 LEU A 259 1 N LEU A 259 O MET A 278 SHEET 4 AA2 8 GLY A 225 VAL A 228 1 N VAL A 228 O TYR A 258 SHEET 5 AA2 8 ALA A 197 GLN A 202 1 N GLY A 200 O ALA A 227 SHEET 6 AA2 8 ILE A 151 MET A 153 1 N VAL A 152 O ALA A 197 SHEET 7 AA2 8 ILE A 99 ASP A 102 1 N THR A 101 O ILE A 151 SHEET 8 AA2 8 ILE A 67 ASN A 70 1 N GLY A 69 O LEU A 100 SHEET 1 AA3 3 THR A 115 GLN A 117 0 SHEET 2 AA3 3 VAL A 122 LYS A 125 -1 O THR A 123 N LYS A 116 SHEET 3 AA3 3 ARG A 132 LEU A 135 -1 O LEU A 135 N VAL A 122 SHEET 1 AA4 2 GLN A 292 ALA A 293 0 SHEET 2 AA4 2 ILE A 300 ASN A 301 -1 O ILE A 300 N ALA A 293 LINK SG CYS A 318 ZN ZN A 401 1555 1555 2.30 LINK SG CYS A 320 ZN ZN A 401 1555 1555 2.33 LINK SG CYS A 323 ZN ZN A 401 1555 1555 2.28 LINK ND1 HIS A 349 ZN ZN A 401 1555 1555 2.13 CISPEP 1 THR A 39 PRO A 40 0 2.93 CISPEP 2 ARG A 77 PRO A 78 0 7.63 CISPEP 3 VAL A 262 GLY A 263 0 -6.04 SITE 1 AC1 4 CYS A 318 CYS A 320 CYS A 323 HIS A 349 SITE 1 AC2 12 ASP A 102 SER A 103 TYR A 106 ASP A 156 SITE 2 AC2 12 ILE A 201 GLN A 203 GLY A 229 GLY A 230 SITE 3 AC2 12 LEU A 231 ALA A 232 MET A 260 HOH A 603 SITE 1 AC3 8 PRO A 56 GLU A 57 GLY A 94 TRP A 95 SITE 2 AC3 8 ASP A 96 ARG A 97 HOH A 543 HOH A 572 SITE 1 AC4 6 LEU A 311 PRO A 313 CYS A 323 LYS A 325 SITE 2 AC4 6 TRP A 326 HOH A 538 CRYST1 90.505 64.819 71.467 90.00 93.11 90.00 C 1 2 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 0.011049 0.000000 0.000600 0.00000 SCALE2 0.000000 0.015428 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014013 0.00000