HEADER RNA BINDING PROTEIN 21-JAN-23 8C9E TITLE PRIESTIA MEGATERIUM MUPIROCIN-SENSITIVE ISOLEUCYL-TRNA SYNTHETASE 1 TITLE 2 COMPLEXED WITH AN ISOLEUCYL-ADENYLATE ANALOGUE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ISOLEUCINE--TRNA LIGASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ISOLEUCYL-TRNA SYNTHETASE,ILERS; COMPND 5 EC: 6.1.1.5; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PRIESTIA MEGATERIUM; SOURCE 3 ORGANISM_TAXID: 1404; SOURCE 4 STRAIN: DSM-32; SOURCE 5 ATCC: 14581; SOURCE 6 CELL: BACTERIAL; SOURCE 7 GENE: ILES, BG04_1180; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PET28B(+) KEYWDS ANTIBIOTIC, MUPIROCIN-SENSITIVE, ILERS1, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.BRKIC,M.LEIBUNDGUT,J.JABLONSKA,V.ZANKI,Z.CAR,V.PETROVIC PEROKOVIC, AUTHOR 2 N.BAN,I.GRUIC-SOVULJ REVDAT 3 27-MAR-24 8C9E 1 JRNL REVDAT 2 13-SEP-23 8C9E 1 JRNL REVDAT 1 16-AUG-23 8C9E 0 JRNL AUTH A.BRKIC,M.LEIBUNDGUT,J.JABLONSKA,V.ZANKI,Z.CAR, JRNL AUTH 2 V.PETROVIC PEROKOVIC,A.MARSAVELSKI,N.BAN,I.GRUIC-SOVULJ JRNL TITL ANTIBIOTIC HYPER-RESISTANCE IN A CLASS I AMINOACYL-TRNA JRNL TITL 2 SYNTHETASE WITH ALTERED ACTIVE SITE SIGNATURE MOTIF. JRNL REF NAT COMMUN V. 14 5498 2023 JRNL REFN ESSN 2041-1723 JRNL PMID 37679387 JRNL DOI 10.1038/S41467-023-41244-3 REMARK 2 REMARK 2 RESOLUTION. 2.90 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.77 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.010 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.9 REMARK 3 NUMBER OF REFLECTIONS : 31890 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.244 REMARK 3 R VALUE (WORKING SET) : 0.242 REMARK 3 FREE R VALUE : 0.269 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.730 REMARK 3 FREE R VALUE TEST SET COUNT : 1827 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 48.7700 - 6.8100 1.00 2644 167 0.1922 0.2161 REMARK 3 2 6.8100 - 5.4100 1.00 2536 154 0.2615 0.3025 REMARK 3 3 5.4100 - 4.7300 1.00 2492 145 0.2269 0.2577 REMARK 3 4 4.7300 - 4.3000 0.99 2494 149 0.2207 0.2410 REMARK 3 5 4.2900 - 3.9900 0.99 2450 148 0.2500 0.2803 REMARK 3 6 3.9900 - 3.7500 0.98 2442 149 0.2656 0.3058 REMARK 3 7 3.7500 - 3.5600 0.97 2411 147 0.2756 0.3147 REMARK 3 8 3.5600 - 3.4100 0.95 2350 141 0.3151 0.3403 REMARK 3 9 3.4100 - 3.2800 0.92 2240 137 0.3279 0.3353 REMARK 3 10 3.2800 - 3.1700 0.89 2221 133 0.3298 0.3119 REMARK 3 11 3.1600 - 3.0700 0.83 2043 133 0.3601 0.3716 REMARK 3 12 3.0700 - 2.9800 0.80 1968 113 0.3681 0.4129 REMARK 3 13 2.9800 - 2.9000 0.73 1772 111 0.3995 0.4232 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) : 0.488 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.458 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 110.5 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 155.1 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 : 0.002 7680 REMARK 3 ANGLE : 0.425 10431 REMARK 3 CHIRALITY : 0.040 1128 REMARK 3 PLANARITY : 0.003 1335 REMARK 3 DIHEDRAL : 10.019 2819 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 20 THROUGH 155) REMARK 3 ORIGIN FOR THE GROUP (A): -46.5745 -23.3371 -8.9400 REMARK 3 T TENSOR REMARK 3 T11: 0.8902 T22: 0.7486 REMARK 3 T33: 1.3465 T12: 0.0192 REMARK 3 T13: -0.4170 T23: 0.1461 REMARK 3 L TENSOR REMARK 3 L11: 0.4494 L22: 0.3180 REMARK 3 L33: 1.7503 L12: 0.2769 REMARK 3 L13: 0.2773 L23: -0.3388 REMARK 3 S TENSOR REMARK 3 S11: 0.1889 S12: -0.2289 S13: -0.3129 REMARK 3 S21: 0.8539 S22: -0.5142 S23: -1.0875 REMARK 3 S31: 0.4829 S32: -0.2280 S33: -0.1710 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 181 THROUGH 409 ) REMARK 3 ORIGIN FOR THE GROUP (A): -83.7094 -24.1473 -40.0434 REMARK 3 T TENSOR REMARK 3 T11: 0.8742 T22: 1.1694 REMARK 3 T33: 0.6324 T12: 0.1071 REMARK 3 T13: -0.1486 T23: -0.0468 REMARK 3 L TENSOR REMARK 3 L11: 1.4404 L22: 1.8172 REMARK 3 L33: 0.9872 L12: 0.2384 REMARK 3 L13: -0.8685 L23: -0.2515 REMARK 3 S TENSOR REMARK 3 S11: 0.1794 S12: 0.3550 S13: 0.0748 REMARK 3 S21: -0.6353 S22: -0.0937 S23: 0.2510 REMARK 3 S31: 0.2325 S32: -0.2660 S33: 0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND ((RESID 410 THROUGH 584 ) OR (RESID REMARK 3 156 THROUGH 180)) REMARK 3 ORIGIN FOR THE GROUP (A): -69.7949 -23.8900 -7.0748 REMARK 3 T TENSOR REMARK 3 T11: 1.0210 T22: 1.0199 REMARK 3 T33: 0.7112 T12: -0.0247 REMARK 3 T13: -0.0331 T23: 0.0054 REMARK 3 L TENSOR REMARK 3 L11: 1.3859 L22: 1.5050 REMARK 3 L33: 0.7163 L12: -0.0057 REMARK 3 L13: -0.2378 L23: 0.3315 REMARK 3 S TENSOR REMARK 3 S11: 0.0741 S12: -0.2409 S13: 0.1732 REMARK 3 S21: 0.9097 S22: -0.0604 S23: 0.1041 REMARK 3 S31: -0.0206 S32: -0.2544 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND ((RESID 633 THROUGH 791 ) OR (RESID 1 REMARK 3 THROUGH 19)) REMARK 3 ORIGIN FOR THE GROUP (A): -25.1892 2.9215 -8.7967 REMARK 3 T TENSOR REMARK 3 T11: 0.7062 T22: 1.1006 REMARK 3 T33: 2.7299 T12: -0.3111 REMARK 3 T13: -1.1124 T23: 0.3000 REMARK 3 L TENSOR REMARK 3 L11: 0.2009 L22: 0.2976 REMARK 3 L33: 0.8080 L12: 0.2603 REMARK 3 L13: 0.1401 L23: 0.3357 REMARK 3 S TENSOR REMARK 3 S11: 0.0230 S12: -0.5151 S13: 0.0722 REMARK 3 S21: 0.7696 S22: -0.1575 S23: -1.2928 REMARK 3 S31: -0.1230 S32: 0.5602 S33: -0.8192 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 792 THROUGH 881 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.8166 23.7511 -23.5500 REMARK 3 T TENSOR REMARK 3 T11: 1.0121 T22: 1.6390 REMARK 3 T33: 2.5065 T12: -0.1284 REMARK 3 T13: -0.3902 T23: 0.4202 REMARK 3 L TENSOR REMARK 3 L11: 0.1143 L22: 0.5072 REMARK 3 L33: 0.8848 L12: -0.0907 REMARK 3 L13: -0.1898 L23: -0.4087 REMARK 3 S TENSOR REMARK 3 S11: 0.4524 S12: 0.5344 S13: 0.6815 REMARK 3 S21: 0.4567 S22: 0.0505 S23: -0.9133 REMARK 3 S31: -0.8733 S32: 0.4860 S33: 0.0103 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 882 THROUGH 921 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.4666 15.0404 -10.1941 REMARK 3 T TENSOR REMARK 3 T11: 1.9884 T22: 1.9102 REMARK 3 T33: 3.9526 T12: -0.2747 REMARK 3 T13: -0.7539 T23: 0.3643 REMARK 3 L TENSOR REMARK 3 L11: 0.0830 L22: 0.0323 REMARK 3 L33: 0.0146 L12: -0.0319 REMARK 3 L13: 0.0039 L23: -0.0122 REMARK 3 S TENSOR REMARK 3 S11: 0.1182 S12: 0.1691 S13: 0.4322 REMARK 3 S21: 0.5327 S22: -0.4571 S23: -0.1482 REMARK 3 S31: 0.2018 S32: -0.1823 S33: 0.0000 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 585 THROUGH 632 ) REMARK 3 ORIGIN FOR THE GROUP (A): -41.9612 -14.3527 -25.3014 REMARK 3 T TENSOR REMARK 3 T11: 0.7613 T22: 0.7125 REMARK 3 T33: 1.5623 T12: -0.1559 REMARK 3 T13: 0.0320 T23: 0.2112 REMARK 3 L TENSOR REMARK 3 L11: 1.1185 L22: 0.6752 REMARK 3 L33: 2.4444 L12: -0.8086 REMARK 3 L13: -1.3763 L23: 1.2517 REMARK 3 S TENSOR REMARK 3 S11: 0.0580 S12: 0.7571 S13: 0.1752 REMARK 3 S21: -0.6273 S22: -0.1784 S23: -1.1594 REMARK 3 S31: -0.6084 S32: -0.3764 S33: -0.0582 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 8C9E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-JAN-23. REMARK 100 THE DEPOSITION ID IS D_1292128062. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-NOV-20 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.8-8.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000305674358714 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS 20190806 REMARK 200 DATA SCALING SOFTWARE : XSCALE 20190806 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34322 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 48.770 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.9 REMARK 200 DATA REDUNDANCY : 20.80 REMARK 200 R MERGE (I) : 0.06695 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.6600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 74.1 REMARK 200 DATA REDUNDANCY IN SHELL : 22.00 REMARK 200 R MERGE FOR SHELL (I) : 3.21900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.980 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER CCP4INTERFACE 7.0.077 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: SINGLE BIPYRAMIDAL CRYSTALS. SUSCEPTIBLE TO CRACKING UPON REMARK 200 TEMPERATURE CHANGE. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5 MM ILE-AMS AND 20 MG/ML WT-HMGH REMARK 280 -PMILERS1 WERE MIXED IN 1:1 RATIO WITH THE WELL SOLUTION REMARK 280 CONTAINING: 300 MM LITHIUM SULFATE, 150 MM SODIUM SULFATE, AND REMARK 280 15 - 25 % PEG3350, 25 MM HEPES-KOH PH=7.5 AT 20 OC, 50 MM NACL. REMARK 280 THE DROP VOLUME OF 2 MICROLITERS, WAS EQUILIBRATED TOWARDS 300 REMARK 280 MICROLITERS OF THE WELL SOLUTION AT 19 DEGREES., PH 7.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 54.40667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 108.81333 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 108.81333 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 54.40667 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -139.0 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 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 OD1 ASP A 677 OH TYR A 719 2.18 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 A 6 -134.46 40.48 REMARK 500 LEU A 7 63.07 60.84 REMARK 500 ASN A 19 59.90 -95.28 REMARK 500 ALA A 59 33.46 -96.76 REMARK 500 ALA A 279 -60.84 -92.01 REMARK 500 GLN A 455 52.55 -93.28 REMARK 500 VAL A 537 -56.92 -120.57 REMARK 500 VAL A 572 -62.83 -91.49 REMARK 500 ILE A 854 54.23 39.84 REMARK 500 GLU A 862 57.77 -95.58 REMARK 500 ALA A 867 -122.63 52.39 REMARK 500 ALA A 869 -68.56 -94.81 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 NA A1016 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 520 OE1 REMARK 620 2 GLU A 520 OE2 41.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 887 SG REMARK 620 2 CYS A 890 SG 108.8 REMARK 620 3 CYS A 907 SG 112.4 107.0 REMARK 620 4 CYS A 910 SG 110.2 107.0 111.2 REMARK 620 N 1 2 3 DBREF1 8C9E A 1 921 UNP A0A0B6A6A8_PRIM2 DBREF2 8C9E A A0A0B6A6A8 1 921 SEQRES 1 A 921 MET GLU TYR LYS ASP THR LEU LEU MET PRO LYS THR GLU SEQRES 2 A 921 PHE PRO MET ARG GLY ASN LEU PRO ASN ARG GLU PRO LYS SEQRES 3 A 921 MET GLN GLU GLN TRP ALA GLU MET ASN ILE TYR GLU LYS SEQRES 4 A 921 VAL GLN LYS ARG THR GLU GLY ARG PRO LEU PHE VAL LEU SEQRES 5 A 921 HIS ASP GLY PRO PRO TYR ALA ASN GLY ASP ILE HIS MET SEQRES 6 A 921 GLY HIS ALA LEU ASN LYS ILE LEU LYS ASP PHE ILE VAL SEQRES 7 A 921 ARG TYR LYS SER MET SER GLY PHE CYS ALA PRO TYR VAL SEQRES 8 A 921 PRO GLY TRP ASP THR HIS GLY LEU PRO ILE GLU THR ALA SEQRES 9 A 921 LEU THR LYS ASN LYS LYS VAL ASN ARG LYS GLU MET THR SEQRES 10 A 921 VAL ALA GLU PHE ARG LYS LEU CYS GLU GLN TYR ALA TRP SEQRES 11 A 921 GLU GLN VAL ASN GLY GLN ARG GLU GLN PHE LYS ARG LEU SEQRES 12 A 921 GLY VAL ARG GLY ASP TRP ASP ASN PRO TYR VAL THR LEU SEQRES 13 A 921 GLN PRO GLN TYR GLU ALA GLN GLN ILE LYS VAL PHE GLY SEQRES 14 A 921 ASP MET ALA LYS LYS GLY TYR ILE TYR LYS GLY LEU LYS SEQRES 15 A 921 PRO VAL TYR TRP SER PRO SER SER GLU SER ALA LEU ALA SEQRES 16 A 921 GLU ALA GLU ILE GLU TYR TYR ASP LYS ARG SER ALA SER SEQRES 17 A 921 ILE TYR VAL ALA PHE ASN VAL LYS ASP GLY LYS GLY VAL SEQRES 18 A 921 LEU GLU GLN ASP GLU LYS PHE ILE ILE TRP THR THR THR SEQRES 19 A 921 PRO TRP THR MET PRO ALA ASN GLN GLY ILE ALA VAL ASN SEQRES 20 A 921 PRO GLU LEU GLN TYR SER VAL VAL GLU ALA ASP GLY ALA SEQRES 21 A 921 LYS TYR VAL VAL ALA THR GLU LEU ILE GLU THR VAL ALA SEQRES 22 A 921 LYS GLU ILE GLU TRP ALA ASP TYR LYS THR LEU ARG THR SEQRES 23 A 921 VAL LYS GLY SER GLU LEU GLU ARG VAL VAL ALA GLU HIS SEQRES 24 A 921 PRO ILE TYR LYS ARG ASP SER LEU VAL VAL LEU GLY ASP SEQRES 25 A 921 HIS VAL THR THR ASP ALA GLY THR GLY CYS VAL HIS THR SEQRES 26 A 921 ALA PRO GLY HIS GLY GLU ASP ASP PHE ILE VAL GLY GLN SEQRES 27 A 921 LYS TYR GLY LEU GLU VAL LEU CYS PRO VAL ASP SER LYS SEQRES 28 A 921 GLY HIS MET THR ASN GLU ALA PRO GLY PHE GLU GLY LEU SEQRES 29 A 921 PHE TYR ASP LYS ALA ASN LYS PRO ILE THR ASP LYS LEU SEQRES 30 A 921 GLU GLU GLU GLY ALA LEU LEU LYS LEU SER PHE ILE THR SEQRES 31 A 921 HIS SER TYR PRO HIS ASP TRP ARG THR LYS LYS PRO THR SEQRES 32 A 921 ILE PHE ARG ALA THR ALA GLN TRP PHE ALA SER ILE LYS SEQRES 33 A 921 ASP PHE ARG GLU ASP LEU LEU LYS ALA VAL GLU LYS THR SEQRES 34 A 921 LYS TRP VAL PRO THR TRP GLY GLU THR ARG LEU TYR ASN SEQRES 35 A 921 MET VAL ARG ASP ARG GLY ASP TRP CYS ILE SER ARG GLN SEQRES 36 A 921 ARG ALA TRP GLY VAL PRO ILE PRO VAL PHE TYR ALA GLU SEQRES 37 A 921 ASN GLU GLU PRO ILE ILE THR ASP GLU THR ILE GLU HIS SEQRES 38 A 921 VAL SER ASN LEU PHE ARG GLU HIS GLY SER ASN VAL TRP SEQRES 39 A 921 PHE GLU ARG GLU ALA LYS ASP LEU LEU PRO GLU GLY PHE SEQRES 40 A 921 THR HIS GLU GLY SER PRO ASN GLY ARG PHE THR LYS GLU SEQRES 41 A 921 THR ASP ILE MET ASP VAL TRP PHE ASP SER GLY SER SER SEQRES 42 A 921 HIS GLN ALA VAL LEU GLU GLU ARG GLU ASP LEU GLN ARG SEQRES 43 A 921 PRO ALA ASP LEU TYR LEU GLU GLY SER ASP GLN TYR ARG SEQRES 44 A 921 GLY TRP PHE ASN SER SER LEU SER THR SER VAL ALA VAL SEQRES 45 A 921 THR GLY GLU ALA PRO TYR LYS GLY VAL LEU SER HIS GLY SEQRES 46 A 921 PHE ALA LEU ASP GLY GLU GLY ARG LYS MET SER LYS SER SEQRES 47 A 921 LEU GLY ASN VAL VAL ILE PRO GLU LYS VAL MET LYS GLN SEQRES 48 A 921 LEU GLY ALA ASP ILE LEU ARG LEU TRP VAL ALA SER VAL SEQRES 49 A 921 ASP TYR GLN ALA ASP VAL ARG VAL SER ASP ASN ILE LEU SEQRES 50 A 921 LYS GLN VAL ALA GLU VAL TYR ARG LYS ILE ARG ASN THR SEQRES 51 A 921 PHE ARG PHE LEU LEU GLY ASN LEU ALA ASP PHE ASN PRO SEQRES 52 A 921 THR THR ASP ALA VAL ALA VAL GLU ASP LEU ARG GLU VAL SEQRES 53 A 921 ASP ARG TYR MET LEU VAL LYS LEU ASN LYS LEU ILE ASP SEQRES 54 A 921 LYS VAL LYS LYS SER TYR ASP SER TYR GLU PHE SER SER SEQRES 55 A 921 ILE TYR HIS ALA VAL HIS ASN PHE CYS THR ILE ASP MET SEQRES 56 A 921 SER SER PHE TYR LEU ASP PHE ALA LYS ASP VAL LEU TYR SEQRES 57 A 921 ILE GLU ALA GLU ASN ASN VAL GLU ARG ARG SER ILE GLN SEQRES 58 A 921 THR VAL LEU TYR GLU THR LEU LEU SER LEU THR LYS LEU SEQRES 59 A 921 VAL SER PRO ILE LEU SER HIS THR ALA ASP GLU VAL TRP SEQRES 60 A 921 VAL HIS ILE PRO ASN VAL THR GLU GLU SER VAL GLN LEU SEQRES 61 A 921 VAL ASP MET PRO GLU VAL GLN GLU ILE GLU GLY ALA ASP SEQRES 62 A 921 GLN LEU VAL GLU LYS TRP ASP ALA PHE MET GLU LEU ARG SEQRES 63 A 921 ASP GLU VAL LEU LYS ALA LEU GLU GLN ALA ARG ASN GLU SEQRES 64 A 921 LYS VAL ILE GLY LYS SER LEU GLU ALA LYS LEU THR LEU SEQRES 65 A 921 TYR PRO THR ALA ASP THR LYS GLU LEU LEU ALA SER ILE SEQRES 66 A 921 SER GLU ASN VAL GLY GLN LEU PHE ILE VAL SER ASP LEU SEQRES 67 A 921 GLU VAL ALA GLU GLY GLU ALA PRO ALA GLU ALA GLN LYS SEQRES 68 A 921 PHE SER TYR ALA SER ILE VAL VAL SER LYS ALA GLU GLY SEQRES 69 A 921 GLU LYS CYS GLU ARG CYS TRP VAL VAL SER PRO THR VAL SEQRES 70 A 921 GLY GLU ASP GLN ASP HIS PRO THR LEU CYS THR ARG CYS SEQRES 71 A 921 ALA ASP VAL VAL LYS ASN HIS TYR VAL GLN GLN HET ZN A1001 1 HET ILA A1002 31 HET ILA A1003 31 HET SO4 A1004 5 HET SO4 A1005 5 HET SO4 A1006 5 HET SO4 A1007 5 HET CL A1008 1 HET CL A1009 1 HET SO4 A1010 5 HET SO4 A1011 5 HET SO4 A1012 5 HET LI A1013 1 HET CL A1014 1 HET CL A1015 1 HET NA A1016 1 HET NA A1017 1 HET NA A1018 1 HETNAM ZN ZINC ION HETNAM ILA N-[ISOLEUCINYL]-N'-[ADENOSYL]-DIAMINOSUFONE HETNAM SO4 SULFATE ION HETNAM CL CHLORIDE ION HETNAM LI LITHIUM ION HETNAM NA SODIUM ION FORMUL 2 ZN ZN 2+ FORMUL 3 ILA 2(C16 H26 N8 O6 S) FORMUL 5 SO4 7(O4 S 2-) FORMUL 9 CL 4(CL 1-) FORMUL 14 LI LI 1+ FORMUL 17 NA 3(NA 1+) HELIX 1 AA1 ASN A 19 ASN A 35 1 17 HELIX 2 AA2 ASN A 35 THR A 44 1 10 HELIX 3 AA3 HIS A 64 MET A 83 1 20 HELIX 4 AA4 GLY A 98 LYS A 109 1 12 HELIX 5 AA5 ASN A 112 MET A 116 5 5 HELIX 6 AA6 THR A 117 GLY A 144 1 28 HELIX 7 AA7 GLN A 157 LYS A 174 1 18 HELIX 8 AA8 ALA A 195 ALA A 197 5 3 HELIX 9 AA9 THR A 234 ASN A 241 5 8 HELIX 10 AB1 LEU A 268 GLU A 277 1 10 HELIX 11 AB2 SER A 290 GLU A 293 5 4 HELIX 12 AB3 ALA A 326 HIS A 329 5 4 HELIX 13 AB4 GLY A 330 TYR A 340 1 11 HELIX 14 AB5 ALA A 358 GLU A 362 5 5 HELIX 15 AB6 ALA A 369 GLU A 380 1 12 HELIX 16 AB7 ILE A 415 ASP A 417 5 3 HELIX 17 AB8 PHE A 418 LYS A 428 1 11 HELIX 18 AB9 THR A 434 ASP A 446 1 13 HELIX 19 AC1 THR A 475 GLY A 490 1 16 HELIX 20 AC2 SER A 491 GLU A 496 1 6 HELIX 21 AC3 ARG A 497 LEU A 502 5 6 HELIX 22 AC4 ASP A 525 SER A 532 1 8 HELIX 23 AC5 SER A 532 VAL A 537 1 6 HELIX 24 AC6 ASP A 556 ARG A 559 5 4 HELIX 25 AC7 GLY A 560 THR A 573 1 14 HELIX 26 AC8 ILE A 604 LEU A 612 1 9 HELIX 27 AC9 ALA A 614 SER A 623 1 10 HELIX 28 AD1 SER A 633 ASN A 657 1 25 HELIX 29 AD2 ARG A 674 TYR A 698 1 25 HELIX 30 AD3 GLU A 699 ILE A 713 1 15 HELIX 31 AD4 PHE A 718 LYS A 724 1 7 HELIX 32 AD5 ASN A 734 SER A 756 1 23 HELIX 33 AD6 SER A 760 HIS A 769 1 10 HELIX 34 AD7 SER A 777 VAL A 781 5 5 HELIX 35 AD8 GLY A 791 LYS A 820 1 30 HELIX 36 AD9 THR A 835 ILE A 845 1 11 HELIX 37 AE1 ASN A 848 PHE A 853 1 6 HELIX 38 AE2 CYS A 907 ASN A 916 1 10 SHEET 1 AA1 2 GLY A 93 TRP A 94 0 SHEET 2 AA1 2 TYR A 153 VAL A 154 1 O TYR A 153 N TRP A 94 SHEET 1 AA2 4 SER A 192 LEU A 194 0 SHEET 2 AA2 4 ILE A 177 SER A 187 -1 N SER A 187 O SER A 192 SHEET 3 AA2 4 ILE A 404 ALA A 413 -1 O PHE A 412 N TYR A 178 SHEET 4 AA2 4 TRP A 450 CYS A 451 -1 O TRP A 450 N ALA A 413 SHEET 1 AA3 9 LYS A 282 LYS A 288 0 SHEET 2 AA3 9 TYR A 252 ALA A 257 -1 N SER A 253 O VAL A 287 SHEET 3 AA3 9 LYS A 261 ALA A 265 -1 O TYR A 262 N GLU A 256 SHEET 4 AA3 9 GLU A 226 THR A 232 1 N LYS A 227 O VAL A 263 SHEET 5 AA3 9 ILE A 199 ASP A 217 -1 N VAL A 211 O ILE A 230 SHEET 6 AA3 9 VAL A 296 GLU A 298 -1 O GLU A 298 N ASN A 214 SHEET 7 AA3 9 ASP A 305 LEU A 310 -1 O SER A 306 N ALA A 297 SHEET 8 AA3 9 GLY A 243 VAL A 246 1 N ILE A 244 O VAL A 309 SHEET 9 AA3 9 VAL A 323 THR A 325 -1 O THR A 325 N GLY A 243 SHEET 1 AA4 6 LYS A 282 LYS A 288 0 SHEET 2 AA4 6 TYR A 252 ALA A 257 -1 N SER A 253 O VAL A 287 SHEET 3 AA4 6 LYS A 261 ALA A 265 -1 O TYR A 262 N GLU A 256 SHEET 4 AA4 6 GLU A 226 THR A 232 1 N LYS A 227 O VAL A 263 SHEET 5 AA4 6 ILE A 199 ASP A 217 -1 N VAL A 211 O ILE A 230 SHEET 6 AA4 6 LEU A 383 ASP A 396 -1 O LEU A 384 N TYR A 210 SHEET 1 AA5 3 LYS A 430 VAL A 432 0 SHEET 2 AA5 3 GLY A 580 HIS A 584 1 O VAL A 581 N VAL A 432 SHEET 3 AA5 3 TYR A 551 GLY A 554 1 N TYR A 551 O LEU A 582 SHEET 1 AA6 2 SER A 453 ARG A 454 0 SHEET 2 AA6 2 ILE A 523 MET A 524 -1 O ILE A 523 N ARG A 454 SHEET 1 AA7 3 PRO A 472 ILE A 473 0 SHEET 2 AA7 3 PHE A 465 TYR A 466 -1 N PHE A 465 O ILE A 473 SHEET 3 AA7 3 THR A 518 LYS A 519 -1 O THR A 518 N TYR A 466 SHEET 1 AA8 2 ALA A 587 LEU A 588 0 SHEET 2 AA8 2 VAL A 630 ARG A 631 1 O VAL A 630 N LEU A 588 SHEET 1 AA9 4 LEU A 858 VAL A 860 0 SHEET 2 AA9 4 ALA A 828 PRO A 834 1 N LEU A 832 O GLU A 859 SHEET 3 AA9 4 ALA A 875 LYS A 881 -1 O SER A 880 N LYS A 829 SHEET 4 AA9 4 LYS A 871 PHE A 872 -1 N PHE A 872 O ALA A 875 SHEET 1 AB1 2 GLU A 885 LYS A 886 0 SHEET 2 AB1 2 VAL A 893 SER A 894 -1 O SER A 894 N GLU A 885 LINK OE1 GLU A 115 NA NA A1017 1555 1555 2.77 LINK OE1 GLU A 520 NA NA A1016 1555 1555 2.96 LINK OE2 GLU A 520 NA NA A1016 1555 1555 3.17 LINK SG CYS A 887 ZN ZN A1001 1555 1555 2.33 LINK SG CYS A 890 ZN ZN A1001 1555 1555 2.32 LINK SG CYS A 907 ZN ZN A1001 1555 1555 2.33 LINK SG CYS A 910 ZN ZN A1001 1555 1555 2.33 CISPEP 1 VAL A 432 PRO A 433 0 3.32 CISPEP 2 ARG A 546 PRO A 547 0 1.80 CRYST1 127.090 127.090 163.220 90.00 90.00 120.00 P 31 2 1 6 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 0.007868 0.004543 0.000000 0.00000 SCALE2 0.000000 0.009086 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006127 0.00000