HEADER RNA BINDING PROTEIN/RNA 03-AUG-23 8KAG TITLE CRYSTAL STRUCTURE OF SPYCAS9 IN COMPLEX WITH SGRNA AND TARGET RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: CRISPR-ASSOCIATED ENDONUCLEASE CAS9/CSN1; COMPND 3 CHAIN: B; COMPND 4 SYNONYM: SPCAS9,SPYCAS9; COMPND 5 EC: 3.1.-.-; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: RNA (98-MER); COMPND 10 CHAIN: A; COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: SGRNA; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: RNA (5'- COMPND 15 R(*CP*CP*AP*CP*UP*UP*CP*AP*AP*UP*UP*AP*GP*AP*AP*CP*AP*CP*GP*GP*AP*CP* COMPND 16 C)-3'); COMPND 17 CHAIN: C; COMPND 18 ENGINEERED: YES; COMPND 19 OTHER_DETAILS: TARGET RNA SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PYOGENES SEROTYPE M1; SOURCE 3 ORGANISM_TAXID: 301447; SOURCE 4 GENE: CAS9, CSN1, SPY_1046; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PYOGENES SEROTYPE M1; SOURCE 9 ORGANISM_TAXID: 301447; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI DH5[ALPHA]; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 668369; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PYOGENES SEROTYPE M1; SOURCE 15 ORGANISM_TAXID: 301447 KEYWDS NUCLEASE, RNA BINDING PROTEIN/RNA, RNA BINDING PROTEIN-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Y.CHEN,J.CHEN,L.LIU REVDAT 2 12-JUN-24 8KAG 1 JRNL REVDAT 1 05-JUN-24 8KAG 0 JRNL AUTH J.CHEN,Y.CHEN,L.HUANG,X.LIN,H.CHEN,W.XIANG,L.LIU JRNL TITL TRANS-NUCLEASE ACTIVITY OF CAS9 ACTIVATED BY DNA OR RNA JRNL TITL 2 TARGET BINDING. JRNL REF NAT.BIOTECHNOL. 2024 JRNL REFN ISSN 1087-0156 JRNL PMID 38811761 JRNL DOI 10.1038/S41587-024-02255-7 REMARK 2 REMARK 2 RESOLUTION. 3.88 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) : 3.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.92 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.410 REMARK 3 COMPLETENESS FOR RANGE (%) : 79.6 REMARK 3 NUMBER OF REFLECTIONS : 20319 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.304 REMARK 3 R VALUE (WORKING SET) : 0.303 REMARK 3 FREE R VALUE : 0.320 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.710 REMARK 3 FREE R VALUE TEST SET COUNT : 957 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 49.9200 - 7.4300 0.99 3584 181 0.2356 0.2418 REMARK 3 2 7.4200 - 5.9000 1.00 3498 159 0.3283 0.2987 REMARK 3 3 5.8900 - 5.1500 0.99 3403 188 0.3245 0.3282 REMARK 3 4 5.1500 - 4.6800 0.98 3383 175 0.3062 0.3291 REMARK 3 5 4.6800 - 4.3500 0.96 3324 153 0.3241 0.3794 REMARK 3 6 4.3400 - 4.0900 0.55 1914 88 0.3398 0.3867 REMARK 3 7 4.0900 - 3.8800 0.08 256 13 0.3455 0.3866 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) : 0.786 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 32.631 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.34 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.00 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 : 0.006 13933 REMARK 3 ANGLE : 1.019 19330 REMARK 3 CHIRALITY : 0.048 2242 REMARK 3 PLANARITY : 0.006 2036 REMARK 3 DIHEDRAL : 19.557 5674 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 8KAG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 09-AUG-23. REMARK 100 THE DEPOSITION ID IS D_1300039960. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-JUL-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL18U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97853 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 7.21 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 7.21 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27876 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.880 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.3300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 5.20 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: PHENIX 1.17.1_360 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.7 M AMMONIUM CITRATE TRIBASIC, 0.1 M REMARK 280 HEPES PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K 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 45.72067 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 91.44133 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 91.44133 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 45.72067 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 81380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -142.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, A, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET B 1 REMARK 465 ASN B 175 REMARK 465 PRO B 176 REMARK 465 ASP B 177 REMARK 465 VAL B 308 REMARK 465 ASN B 309 REMARK 465 THR B 310 REMARK 465 GLU B 311 REMARK 465 LYS B 510 REMARK 465 HIS B 511 REMARK 465 SER B 512 REMARK 465 GLY B 717 REMARK 465 ASP B 718 REMARK 465 SER B 719 REMARK 465 GLN B 768 REMARK 465 THR B 769 REMARK 465 THR B 770 REMARK 465 GLN B 771 REMARK 465 LYS B 772 REMARK 465 GLY B 773 REMARK 465 GLN B 774 REMARK 465 LYS B 775 REMARK 465 C C -2 REMARK 465 C C -1 REMARK 465 A C 0 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 B 180 CG OD1 OD2 REMARK 470 ASP B 182 CG OD1 OD2 REMARK 470 LYS B 183 CG CD CE NZ REMARK 470 LEU B 195 CG CD1 CD2 REMARK 470 GLU B 198 CG CD OE1 OE2 REMARK 470 LYS B 209 CG CD CE NZ REMARK 470 ARG B 220 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 221 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 233 CG CD CE NZ REMARK 470 LYS B 234 CG CD CE NZ REMARK 470 LYS B 253 CG CD CE NZ REMARK 470 GLN B 285 CG CD OE1 NE2 REMARK 470 LYS B 356 CG CD CE NZ REMARK 470 LYS B 797 CG CD CE NZ REMARK 470 ARG B 905 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 910 CG CD OE1 OE2 REMARK 470 VAL B1139 CG1 CG2 REMARK 470 LYS B1246 CG CD CE NZ REMARK 470 LYS B1255 CG CD CE NZ 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 OH TYR B 373 O LEU B 398 1.93 REMARK 500 O LEU B 551 OG1 THR B 555 2.02 REMARK 500 O PHE B 1045 NZ LYS B 1076 2.03 REMARK 500 NH2 ARG B 400 OD2 ASP B 406 2.03 REMARK 500 NE2 GLN B 83 OH TYR B 155 2.03 REMARK 500 O GLY B 172 NE2 GLN B 413 2.09 REMARK 500 O VAL B 992 OG1 THR B 995 2.10 REMARK 500 O ILE B 917 N LEU B 921 2.12 REMARK 500 O GLN B 817 OH TYR B 882 2.13 REMARK 500 OH TYR B 359 O2' G A 43 2.13 REMARK 500 OE2 GLU B 125 O2' A A 26 2.13 REMARK 500 NH1 ARG B 340 OP1 C A 40 2.13 REMARK 500 OH TYR B 1036 OE1 GLU B 1068 2.14 REMARK 500 O GLU B 1268 N GLN B 1272 2.15 REMARK 500 OD1 ASP B 700 NZ LYS B 705 2.15 REMARK 500 O ILE B 448 O2' U A 16 2.16 REMARK 500 O TYR B 1326 OG1 THR B 1329 2.16 REMARK 500 N THR B 404 OD1 ASN B 407 2.16 REMARK 500 NZ LYS B 1222 O ASN B 1317 2.16 REMARK 500 O GLY B 736 OG1 THR B 740 2.17 REMARK 500 O ILE B 1269 N ILE B 1273 2.18 REMARK 500 OE2 GLU B 746 OG SER B 1351 2.18 REMARK 500 O ILE B 934 N ARG B 938 2.19 REMARK 500 O LYS B 209 OG SER B 213 2.19 REMARK 500 O LEU B 508 N GLY B 660 2.19 REMARK 500 OG1 THR B 1065 O GLU B 1071 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O LYS B 148 O GLU B 532 4565 2.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG B1303 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 G A 62 N3 - C4 - C5 ANGL. DEV. = 3.1 DEGREES REMARK 500 G A 89 N9 - C4 - C5 ANGL. DEV. = -2.4 DEGREES REMARK 500 G A 89 C5 - C6 - O6 ANGL. DEV. = -3.7 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP B 39 1.14 -66.70 REMARK 500 ALA B 59 4.04 -67.13 REMARK 500 HIS B 113 -133.34 62.64 REMARK 500 GLU B 197 -71.62 -57.09 REMARK 500 LYS B 336 -34.84 -36.64 REMARK 500 GLU B 396 35.31 70.25 REMARK 500 PRO B 454 -175.93 -69.72 REMARK 500 HIS B 641 9.63 -67.86 REMARK 500 THR B 703 1.58 -67.19 REMARK 500 GLN B 712 6.11 -66.63 REMARK 500 ALA B 725 6.73 -68.69 REMARK 500 ARG B 864 9.63 -66.93 REMARK 500 MET B 879 -1.36 92.48 REMARK 500 ASP B 947 45.92 70.88 REMARK 500 ARG B 951 76.74 -119.71 REMARK 500 THR B 995 -70.22 -55.45 REMARK 500 ALA B 996 -17.09 -48.36 REMARK 500 TYR B1001 79.58 -116.67 REMARK 500 PRO B1002 5.72 -69.24 REMARK 500 ASP B1017 -37.29 -132.43 REMARK 500 THR B1051 97.25 -53.94 REMARK 500 LEU B1052 87.96 -59.06 REMARK 500 ALA B1053 -112.52 61.59 REMARK 500 ILE B1072 91.96 -68.24 REMARK 500 TYR B1201 14.91 87.84 REMARK 500 ASN B1208 13.36 84.14 REMARK 500 LYS B1246 -129.90 53.08 REMARK 500 HIS B1262 75.89 -117.58 REMARK 500 PHE B1327 -136.65 51.96 REMARK 500 REMARK 500 REMARK: NULL DBREF 8KAG B 1 1368 UNP Q99ZW2 CAS9_STRP1 1 1368 DBREF 8KAG A 1 98 PDB 8KAG 8KAG 1 98 DBREF 8KAG C -2 20 PDB 8KAG 8KAG -2 20 SEQADV 8KAG ALA B 10 UNP Q99ZW2 ASP 10 ENGINEERED MUTATION SEQADV 8KAG ALA B 840 UNP Q99ZW2 HIS 840 ENGINEERED MUTATION SEQRES 1 B 1368 MET ASP LYS LYS TYR SER ILE GLY LEU ALA ILE GLY THR SEQRES 2 B 1368 ASN SER VAL GLY TRP ALA VAL ILE THR ASP GLU TYR LYS SEQRES 3 B 1368 VAL PRO SER LYS LYS PHE LYS VAL LEU GLY ASN THR ASP SEQRES 4 B 1368 ARG HIS SER ILE LYS LYS ASN LEU ILE GLY ALA LEU LEU SEQRES 5 B 1368 PHE ASP SER GLY GLU THR ALA GLU ALA THR ARG LEU LYS SEQRES 6 B 1368 ARG THR ALA ARG ARG ARG TYR THR ARG ARG LYS ASN ARG SEQRES 7 B 1368 ILE CYS TYR LEU GLN GLU ILE PHE SER ASN GLU MET ALA SEQRES 8 B 1368 LYS VAL ASP ASP SER PHE PHE HIS ARG LEU GLU GLU SER SEQRES 9 B 1368 PHE LEU VAL GLU GLU ASP LYS LYS HIS GLU ARG HIS PRO SEQRES 10 B 1368 ILE PHE GLY ASN ILE VAL ASP GLU VAL ALA TYR HIS GLU SEQRES 11 B 1368 LYS TYR PRO THR ILE TYR HIS LEU ARG LYS LYS LEU VAL SEQRES 12 B 1368 ASP SER THR ASP LYS ALA ASP LEU ARG LEU ILE TYR LEU SEQRES 13 B 1368 ALA LEU ALA HIS MET ILE LYS PHE ARG GLY HIS PHE LEU SEQRES 14 B 1368 ILE GLU GLY ASP LEU ASN PRO ASP ASN SER ASP VAL ASP SEQRES 15 B 1368 LYS LEU PHE ILE GLN LEU VAL GLN THR TYR ASN GLN LEU SEQRES 16 B 1368 PHE GLU GLU ASN PRO ILE ASN ALA SER GLY VAL ASP ALA SEQRES 17 B 1368 LYS ALA ILE LEU SER ALA ARG LEU SER LYS SER ARG ARG SEQRES 18 B 1368 LEU GLU ASN LEU ILE ALA GLN LEU PRO GLY GLU LYS LYS SEQRES 19 B 1368 ASN GLY LEU PHE GLY ASN LEU ILE ALA LEU SER LEU GLY SEQRES 20 B 1368 LEU THR PRO ASN PHE LYS SER ASN PHE ASP LEU ALA GLU SEQRES 21 B 1368 ASP ALA LYS LEU GLN LEU SER LYS ASP THR TYR ASP ASP SEQRES 22 B 1368 ASP LEU ASP ASN LEU LEU ALA GLN ILE GLY ASP GLN TYR SEQRES 23 B 1368 ALA ASP LEU PHE LEU ALA ALA LYS ASN LEU SER ASP ALA SEQRES 24 B 1368 ILE LEU LEU SER ASP ILE LEU ARG VAL ASN THR GLU ILE SEQRES 25 B 1368 THR LYS ALA PRO LEU SER ALA SER MET ILE LYS ARG TYR SEQRES 26 B 1368 ASP GLU HIS HIS GLN ASP LEU THR LEU LEU LYS ALA LEU SEQRES 27 B 1368 VAL ARG GLN GLN LEU PRO GLU LYS TYR LYS GLU ILE PHE SEQRES 28 B 1368 PHE ASP GLN SER LYS ASN GLY TYR ALA GLY TYR ILE ASP SEQRES 29 B 1368 GLY GLY ALA SER GLN GLU GLU PHE TYR LYS PHE ILE LYS SEQRES 30 B 1368 PRO ILE LEU GLU LYS MET ASP GLY THR GLU GLU LEU LEU SEQRES 31 B 1368 VAL LYS LEU ASN ARG GLU ASP LEU LEU ARG LYS GLN ARG SEQRES 32 B 1368 THR PHE ASP ASN GLY SER ILE PRO HIS GLN ILE HIS LEU SEQRES 33 B 1368 GLY GLU LEU HIS ALA ILE LEU ARG ARG GLN GLU ASP PHE SEQRES 34 B 1368 TYR PRO PHE LEU LYS ASP ASN ARG GLU LYS ILE GLU LYS SEQRES 35 B 1368 ILE LEU THR PHE ARG ILE PRO TYR TYR VAL GLY PRO LEU SEQRES 36 B 1368 ALA ARG GLY ASN SER ARG PHE ALA TRP MET THR ARG LYS SEQRES 37 B 1368 SER GLU GLU THR ILE THR PRO TRP ASN PHE GLU GLU VAL SEQRES 38 B 1368 VAL ASP LYS GLY ALA SER ALA GLN SER PHE ILE GLU ARG SEQRES 39 B 1368 MET THR ASN PHE ASP LYS ASN LEU PRO ASN GLU LYS VAL SEQRES 40 B 1368 LEU PRO LYS HIS SER LEU LEU TYR GLU TYR PHE THR VAL SEQRES 41 B 1368 TYR ASN GLU LEU THR LYS VAL LYS TYR VAL THR GLU GLY SEQRES 42 B 1368 MET ARG LYS PRO ALA PHE LEU SER GLY GLU GLN LYS LYS SEQRES 43 B 1368 ALA ILE VAL ASP LEU LEU PHE LYS THR ASN ARG LYS VAL SEQRES 44 B 1368 THR VAL LYS GLN LEU LYS GLU ASP TYR PHE LYS LYS ILE SEQRES 45 B 1368 GLU CYS PHE ASP SER VAL GLU ILE SER GLY VAL GLU ASP SEQRES 46 B 1368 ARG PHE ASN ALA SER LEU GLY THR TYR HIS ASP LEU LEU SEQRES 47 B 1368 LYS ILE ILE LYS ASP LYS ASP PHE LEU ASP ASN GLU GLU SEQRES 48 B 1368 ASN GLU ASP ILE LEU GLU ASP ILE VAL LEU THR LEU THR SEQRES 49 B 1368 LEU PHE GLU ASP ARG GLU MET ILE GLU GLU ARG LEU LYS SEQRES 50 B 1368 THR TYR ALA HIS LEU PHE ASP ASP LYS VAL MET LYS GLN SEQRES 51 B 1368 LEU LYS ARG ARG ARG TYR THR GLY TRP GLY ARG LEU SER SEQRES 52 B 1368 ARG LYS LEU ILE ASN GLY ILE ARG ASP LYS GLN SER GLY SEQRES 53 B 1368 LYS THR ILE LEU ASP PHE LEU LYS SER ASP GLY PHE ALA SEQRES 54 B 1368 ASN ARG ASN PHE MET GLN LEU ILE HIS ASP ASP SER LEU SEQRES 55 B 1368 THR PHE LYS GLU ASP ILE GLN LYS ALA GLN VAL SER GLY SEQRES 56 B 1368 GLN GLY ASP SER LEU HIS GLU HIS ILE ALA ASN LEU ALA SEQRES 57 B 1368 GLY SER PRO ALA ILE LYS LYS GLY ILE LEU GLN THR VAL SEQRES 58 B 1368 LYS VAL VAL ASP GLU LEU VAL LYS VAL MET GLY ARG HIS SEQRES 59 B 1368 LYS PRO GLU ASN ILE VAL ILE GLU MET ALA ARG GLU ASN SEQRES 60 B 1368 GLN THR THR GLN LYS GLY GLN LYS ASN SER ARG GLU ARG SEQRES 61 B 1368 MET LYS ARG ILE GLU GLU GLY ILE LYS GLU LEU GLY SER SEQRES 62 B 1368 GLN ILE LEU LYS GLU HIS PRO VAL GLU ASN THR GLN LEU SEQRES 63 B 1368 GLN ASN GLU LYS LEU TYR LEU TYR TYR LEU GLN ASN GLY SEQRES 64 B 1368 ARG ASP MET TYR VAL ASP GLN GLU LEU ASP ILE ASN ARG SEQRES 65 B 1368 LEU SER ASP TYR ASP VAL ASP ALA ILE VAL PRO GLN SER SEQRES 66 B 1368 PHE LEU LYS ASP ASP SER ILE ASP ASN LYS VAL LEU THR SEQRES 67 B 1368 ARG SER ASP LYS ASN ARG GLY LYS SER ASP ASN VAL PRO SEQRES 68 B 1368 SER GLU GLU VAL VAL LYS LYS MET LYS ASN TYR TRP ARG SEQRES 69 B 1368 GLN LEU LEU ASN ALA LYS LEU ILE THR GLN ARG LYS PHE SEQRES 70 B 1368 ASP ASN LEU THR LYS ALA GLU ARG GLY GLY LEU SER GLU SEQRES 71 B 1368 LEU ASP LYS ALA GLY PHE ILE LYS ARG GLN LEU VAL GLU SEQRES 72 B 1368 THR ARG GLN ILE THR LYS HIS VAL ALA GLN ILE LEU ASP SEQRES 73 B 1368 SER ARG MET ASN THR LYS TYR ASP GLU ASN ASP LYS LEU SEQRES 74 B 1368 ILE ARG GLU VAL LYS VAL ILE THR LEU LYS SER LYS LEU SEQRES 75 B 1368 VAL SER ASP PHE ARG LYS ASP PHE GLN PHE TYR LYS VAL SEQRES 76 B 1368 ARG GLU ILE ASN ASN TYR HIS HIS ALA HIS ASP ALA TYR SEQRES 77 B 1368 LEU ASN ALA VAL VAL GLY THR ALA LEU ILE LYS LYS TYR SEQRES 78 B 1368 PRO LYS LEU GLU SER GLU PHE VAL TYR GLY ASP TYR LYS SEQRES 79 B 1368 VAL TYR ASP VAL ARG LYS MET ILE ALA LYS SER GLU GLN SEQRES 80 B 1368 GLU ILE GLY LYS ALA THR ALA LYS TYR PHE PHE TYR SER SEQRES 81 B 1368 ASN ILE MET ASN PHE PHE LYS THR GLU ILE THR LEU ALA SEQRES 82 B 1368 ASN GLY GLU ILE ARG LYS ARG PRO LEU ILE GLU THR ASN SEQRES 83 B 1368 GLY GLU THR GLY GLU ILE VAL TRP ASP LYS GLY ARG ASP SEQRES 84 B 1368 PHE ALA THR VAL ARG LYS VAL LEU SER MET PRO GLN VAL SEQRES 85 B 1368 ASN ILE VAL LYS LYS THR GLU VAL GLN THR GLY GLY PHE SEQRES 86 B 1368 SER LYS GLU SER ILE LEU PRO LYS ARG ASN SER ASP LYS SEQRES 87 B 1368 LEU ILE ALA ARG LYS LYS ASP TRP ASP PRO LYS LYS TYR SEQRES 88 B 1368 GLY GLY PHE ASP SER PRO THR VAL ALA TYR SER VAL LEU SEQRES 89 B 1368 VAL VAL ALA LYS VAL GLU LYS GLY LYS SER LYS LYS LEU SEQRES 90 B 1368 LYS SER VAL LYS GLU LEU LEU GLY ILE THR ILE MET GLU SEQRES 91 B 1368 ARG SER SER PHE GLU LYS ASN PRO ILE ASP PHE LEU GLU SEQRES 92 B 1368 ALA LYS GLY TYR LYS GLU VAL LYS LYS ASP LEU ILE ILE SEQRES 93 B 1368 LYS LEU PRO LYS TYR SER LEU PHE GLU LEU GLU ASN GLY SEQRES 94 B 1368 ARG LYS ARG MET LEU ALA SER ALA GLY GLU LEU GLN LYS SEQRES 95 B 1368 GLY ASN GLU LEU ALA LEU PRO SER LYS TYR VAL ASN PHE SEQRES 96 B 1368 LEU TYR LEU ALA SER HIS TYR GLU LYS LEU LYS GLY SER SEQRES 97 B 1368 PRO GLU ASP ASN GLU GLN LYS GLN LEU PHE VAL GLU GLN SEQRES 98 B 1368 HIS LYS HIS TYR LEU ASP GLU ILE ILE GLU GLN ILE SER SEQRES 99 B 1368 GLU PHE SER LYS ARG VAL ILE LEU ALA ASP ALA ASN LEU SEQRES 100 B 1368 ASP LYS VAL LEU SER ALA TYR ASN LYS HIS ARG ASP LYS SEQRES 101 B 1368 PRO ILE ARG GLU GLN ALA GLU ASN ILE ILE HIS LEU PHE SEQRES 102 B 1368 THR LEU THR ASN LEU GLY ALA PRO ALA ALA PHE LYS TYR SEQRES 103 B 1368 PHE ASP THR THR ILE ASP ARG LYS ARG TYR THR SER THR SEQRES 104 B 1368 LYS GLU VAL LEU ASP ALA THR LEU ILE HIS GLN SER ILE SEQRES 105 B 1368 THR GLY LEU TYR GLU THR ARG ILE ASP LEU SER GLN LEU SEQRES 106 B 1368 GLY GLY ASP SEQRES 1 A 98 G G U C C G U G U U C U A SEQRES 2 A 98 A U U G A A G G U U U U A SEQRES 3 A 98 G A G C U A G A A A U A G SEQRES 4 A 98 C A A G U U A A A A U A A SEQRES 5 A 98 G G C U A G U C C G U U A SEQRES 6 A 98 U C A A C U U G A A A A A SEQRES 7 A 98 G U G G C A C C G A G U C SEQRES 8 A 98 G G U G C U C SEQRES 1 C 23 C C A C U U C A A U U A G SEQRES 2 C 23 A A C A C G G A C C HELIX 1 AA1 ALA B 59 ASP B 94 1 36 HELIX 2 AA2 PHE B 97 GLU B 102 1 6 HELIX 3 AA3 ASN B 121 TYR B 132 1 12 HELIX 4 AA4 THR B 134 SER B 145 1 12 HELIX 5 AA5 ASP B 150 LYS B 163 1 14 HELIX 6 AA6 ASP B 180 PHE B 196 1 17 HELIX 7 AA7 ALA B 208 ALA B 214 1 7 HELIX 8 AA8 SER B 217 ALA B 227 1 11 HELIX 9 AA9 GLY B 236 GLY B 247 1 12 HELIX 10 AB1 THR B 270 LEU B 279 1 10 HELIX 11 AB2 TYR B 286 LEU B 302 1 17 HELIX 12 AB3 SER B 303 LEU B 306 5 4 HELIX 13 AB4 ALA B 315 LEU B 343 1 29 HELIX 14 AB5 LYS B 346 PHE B 351 1 6 HELIX 15 AB6 GLY B 358 ASP B 364 1 7 HELIX 16 AB7 SER B 368 MET B 383 1 16 HELIX 17 AB8 THR B 386 GLU B 396 1 11 HELIX 18 AB9 THR B 404 ILE B 410 5 7 HELIX 19 AC1 PRO B 411 GLU B 427 1 17 HELIX 20 AC2 TYR B 430 ASN B 436 1 7 HELIX 21 AC3 ASN B 436 PHE B 446 1 11 HELIX 22 AC4 ASN B 477 VAL B 481 5 5 HELIX 23 AC5 ASP B 483 MET B 495 1 13 HELIX 24 AC6 LEU B 514 LYS B 526 1 13 HELIX 25 AC7 SER B 541 LEU B 552 1 12 HELIX 26 AC8 THR B 560 TYR B 568 1 9 HELIX 27 AC9 LEU B 591 ILE B 601 1 11 HELIX 28 AD1 ASP B 603 ASP B 608 1 6 HELIX 29 AD2 ASN B 612 PHE B 626 1 15 HELIX 30 AD3 ASP B 628 LYS B 637 1 10 HELIX 31 AD4 THR B 638 PHE B 643 5 6 HELIX 32 AD5 ASP B 644 ARG B 654 1 11 HELIX 33 AD6 THR B 678 LYS B 684 1 7 HELIX 34 AD7 ASN B 692 ILE B 697 1 6 HELIX 35 AD8 THR B 703 GLN B 712 1 10 HELIX 36 AD9 SER B 730 MET B 751 1 22 HELIX 37 AE1 ARG B 778 ARG B 783 1 6 HELIX 38 AE2 GLU B 786 LEU B 791 1 6 HELIX 39 AE3 GLN B 794 HIS B 799 1 6 HELIX 40 AE4 ASN B 808 LEU B 813 1 6 HELIX 41 AE5 ASP B 861 GLY B 865 5 5 HELIX 42 AE6 SER B 872 LYS B 878 1 7 HELIX 43 AE7 MET B 879 ASN B 888 1 10 HELIX 44 AE8 THR B 893 GLY B 906 1 14 HELIX 45 AE9 SER B 909 VAL B 922 1 14 HELIX 46 AF1 GLN B 926 ASN B 940 1 15 HELIX 47 AF2 LYS B 959 PHE B 970 1 12 HELIX 48 AF3 ASN B 980 TYR B 1001 1 22 HELIX 49 AF4 LEU B 1004 VAL B 1009 1 6 HELIX 50 AF5 ARG B 1078 SER B 1088 1 11 HELIX 51 AF6 ASP B 1127 GLY B 1132 1 6 HELIX 52 AF7 ILE B 1168 ASN B 1177 1 10 HELIX 53 AF8 ASN B 1177 LYS B 1185 1 9 HELIX 54 AF9 PRO B 1229 ALA B 1239 1 11 HELIX 55 AG1 SER B 1248 HIS B 1262 1 15 HELIX 56 AG2 LYS B 1263 VAL B 1280 1 18 HELIX 57 AG3 ALA B 1283 ARG B 1298 1 16 HELIX 58 AG4 PRO B 1301 LEU B 1312 1 12 HELIX 59 AG5 PHE B 1313 THR B 1316 5 4 HELIX 60 AG6 THR B 1339 LEU B 1343 5 5 SHEET 1 AA1 4 ILE B 21 THR B 22 0 SHEET 2 AA1 4 TYR B 5 ILE B 11 -1 N SER B 6 O ILE B 21 SHEET 3 AA1 4 ASN B 758 ILE B 761 1 O VAL B 760 N LEU B 9 SHEET 4 AA1 4 LYS B 954 THR B 957 1 O ILE B 956 N ILE B 759 SHEET 1 AA2 5 ILE B 21 THR B 22 0 SHEET 2 AA2 5 TYR B 5 ILE B 11 -1 N SER B 6 O ILE B 21 SHEET 3 AA2 5 SER B 15 TRP B 18 -1 O GLY B 17 N ALA B 10 SHEET 4 AA2 5 GLY B 49 LEU B 52 -1 O LEU B 51 N VAL B 16 SHEET 5 AA2 5 ASN B1093 LYS B1096 1 O ASN B1093 N ALA B 50 SHEET 1 AA3 4 SER B 42 ASN B 46 0 SHEET 2 AA3 4 SER B 29 LEU B 35 -1 N PHE B 32 O ILE B 43 SHEET 3 AA3 4 GLU B1357 THR B1358 1 O GLU B1357 N LEU B 35 SHEET 4 AA3 4 HIS B1349 GLN B1350 -1 N HIS B1349 O THR B1358 SHEET 1 AA4 3 ALA B 538 PHE B 539 0 SHEET 2 AA4 3 LYS B 528 THR B 531 -1 N TYR B 529 O ALA B 538 SHEET 3 AA4 3 VAL B 578 ILE B 580 -1 O GLU B 579 N VAL B 530 SHEET 1 AA5 2 ASP B 837 ALA B 840 0 SHEET 2 AA5 2 LYS B 855 THR B 858 -1 O THR B 858 N ASP B 837 SHEET 1 AA6 2 GLU B1049 LEU B1052 0 SHEET 2 AA6 2 GLU B1056 LYS B1059 -1 O ARG B1058 N ILE B1050 SHEET 1 AA7 2 ILE B1063 GLU B1064 0 SHEET 2 AA7 2 TRP B1074 ASP B1075 -1 O TRP B1074 N GLU B1064 SHEET 1 AA8 2 ILE B1120 ALA B1121 0 SHEET 2 AA8 2 GLY B1133 PHE B1134 -1 O PHE B1134 N ILE B1120 SHEET 1 AA9 3 GLU B1162 THR B1167 0 SHEET 2 AA9 3 VAL B1139 VAL B1145 -1 N VAL B1143 O LEU B1164 SHEET 3 AA9 3 LYS B1197 PRO B1199 -1 O LEU B1198 N SER B1142 SHEET 1 AB1 2 VAL B1149 GLU B1150 0 SHEET 2 AB1 2 LEU B1157 LYS B1158 -1 O LYS B1158 N VAL B1149 SHEET 1 AB2 2 PHE B1204 GLU B1205 0 SHEET 2 AB2 2 THR B1346 LEU B1347 -1 O THR B1346 N GLU B1205 SHEET 1 AB3 2 ARG B1212 MET B1213 0 SHEET 2 AB3 2 GLN B1221 LYS B1222 -1 O GLN B1221 N MET B1213 SHEET 1 AB4 2 PHE B1324 TYR B1326 0 SHEET 2 AB4 2 THR B1329 ILE B1331 -1 O THR B1329 N TYR B1326 CRYST1 185.681 185.681 137.162 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 0.005386 0.003109 0.000000 0.00000 SCALE2 0.000000 0.006219 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007291 0.00000