HEADER RNA BINDING PROTEIN 22-JAN-24 8Y0D TITLE CRYSTAL STRUCTURE OF SAUCAS9 IN COMPLEX WITH SGRNA AND 20NT SSDNA TITLE 2 TARGET COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (73-MER); COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (5'- COMPND 7 D(P*GP*TP*AP*AP*AP*GP*TP*TP*AP*AP*AP*TP*AP*GP*CP*AP*GP*AP*C)-3'); COMPND 8 CHAIN: C; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: CRISPR-ASSOCIATED ENDONUCLEASE CAS9; COMPND 12 CHAIN: A; COMPND 13 SYNONYM: SACAS9; COMPND 14 EC: 3.1.-.-; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 4 ORGANISM_TAXID: 1280; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 8 ORGANISM_TAXID: 1280; SOURCE 9 MOL_ID: 3; SOURCE 10 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 11 ORGANISM_TAXID: 1280; SOURCE 12 GENE: CAS9; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS CRISPR, CAS12A, CRRNA, COMPLEX, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.CHEN,J.CHEN,L.LIU REVDAT 2 19-FEB-25 8Y0D 1 JRNL REVDAT 1 01-JAN-25 8Y0D 0 JRNL AUTH J.CHEN,X.LIN,W.XIANG,Y.CHEN,Y.ZHAO,L.HUANG,L.LIU JRNL TITL DNA TARGET BINDING-INDUCED PRE-CRRNA PROCESSING IN TYPE II JRNL TITL 2 AND V CRISPR-CAS SYSTEMS. JRNL REF NUCLEIC ACIDS RES. V. 53 2025 JRNL REFN ESSN 1362-4962 JRNL PMID 39676682 JRNL DOI 10.1093/NAR/GKAE1241 REMARK 2 REMARK 2 RESOLUTION. 3.92 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.65 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.420 REMARK 3 COMPLETENESS FOR RANGE (%) : 77.0 REMARK 3 NUMBER OF REFLECTIONS : 13287 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.289 REMARK 3 R VALUE (WORKING SET) : 0.286 REMARK 3 FREE R VALUE : 0.318 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.970 REMARK 3 FREE R VALUE TEST SET COUNT : 1325 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 48.6500 - 8.1500 0.99 1744 193 0.2615 0.2867 REMARK 3 2 8.1500 - 6.4700 1.00 1719 200 0.3237 0.3544 REMARK 3 3 6.4700 - 5.6600 0.99 1707 188 0.3366 0.3881 REMARK 3 4 5.6600 - 5.1400 0.98 1686 186 0.3080 0.3616 REMARK 3 5 5.1400 - 4.7700 0.94 1618 180 0.2916 0.3039 REMARK 3 6 4.7700 - 4.4900 0.86 1499 160 0.2757 0.2966 REMARK 3 7 4.4900 - 4.2700 0.70 1182 135 0.2602 0.2982 REMARK 3 8 4.2700 - 4.0800 0.40 700 69 0.2549 0.3052 REMARK 3 9 4.0800 - 3.9200 0.06 107 14 0.2569 0.1940 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) : 0.683 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.795 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 6.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.58 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 10385 REMARK 3 ANGLE : 0.802 14460 REMARK 3 CHIRALITY : 0.048 1684 REMARK 3 PLANARITY : 0.004 1522 REMARK 3 DIHEDRAL : 23.504 4141 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 8Y0D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-JAN-24. REMARK 100 THE DEPOSITION ID IS D_1300042251. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-DEC-22 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) : 0.97915 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 : 17461 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.900 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 (%) : 98.9 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.6700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 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_3660 REMARK 200 STARTING MODEL: 5AXW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM CHLORIDE, 0.1 M SODIUM REMARK 280 HEPES, PH 7.0, 11% PEG 8000, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 72.78350 REMARK 290 SMTRY3 2 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 12980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 61400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -115.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, 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 C B 74 REMARK 465 DC C 28 REMARK 465 MET A 1 REMARK 465 LYS A 2 REMARK 465 LYS A 427 REMARK 465 VAL A 428 REMARK 465 ASP A 429 REMARK 465 LEU A 430 REMARK 465 SER A 431 REMARK 465 GLN A 432 REMARK 465 GLN A 433 REMARK 465 LYS A 434 REMARK 465 GLU A 435 REMARK 465 ILE A 436 REMARK 465 PRO A 437 REMARK 465 GLU A 481 REMARK 465 LYS A 482 REMARK 465 ASN A 483 REMARK 465 SER A 484 REMARK 465 LYS A 485 REMARK 465 ASP A 486 REMARK 465 ALA A 487 REMARK 465 GLN A 488 REMARK 465 LYS A 489 REMARK 465 MET A 490 REMARK 465 ILE A 491 REMARK 465 ASN A 492 REMARK 465 GLU A 493 REMARK 465 MET A 494 REMARK 465 GLN A 495 REMARK 465 LYS A 496 REMARK 465 ARG A 497 REMARK 465 ASN A 498 REMARK 465 ARG A 499 REMARK 465 GLN A 500 REMARK 465 THR A 649 REMARK 465 ARG A 650 REMARK 465 TYR A 651 REMARK 465 GLU A 734 REMARK 465 GLU A 735 REMARK 465 LYS A 736 REMARK 465 GLN A 737 REMARK 465 ALA A 738 REMARK 465 GLU A 739 REMARK 465 SER A 740 REMARK 465 GLY A 1053 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 U B 73 C5' C4' O4' C3' O3' C2' O2' REMARK 470 U B 73 C1' N1 C2 O2 N3 C4 O4 REMARK 470 U B 73 C5 C6 REMARK 470 TYR A 23 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU A 24 CG CD OE1 OE2 REMARK 470 ASN A 43 CG OD1 ND2 REMARK 470 ASN A 44 CA REMARK 470 ARG A 47 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 48 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 50 CG CD CE NZ REMARK 470 ARG A 51 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 54 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 55 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 57 CG CD CE NZ REMARK 470 ARG A 58 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 59 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 60 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 61 CG CD NE CZ NH1 NH2 REMARK 470 HIS A 62 CG ND1 CD2 CE1 NE2 REMARK 470 ARG A 63 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 66 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 68 CG CD CE NZ REMARK 470 LYS A 69 CG CD CE NZ REMARK 470 GLU A 82 CG CD OE1 OE2 REMARK 470 LYS A 99 CG CD CE NZ REMARK 470 ASN A 122 CG OD1 ND2 REMARK 470 GLU A 123 CG CD OE1 OE2 REMARK 470 ASN A 130 CG OD1 ND2 REMARK 470 LYS A 135 CG CD CE NZ REMARK 470 GLU A 146 CG CD OE1 OE2 REMARK 470 GLU A 147 CG CD OE1 OE2 REMARK 470 LYS A 160 CG CD CE NZ REMARK 470 LYS A 188 CG CD CE NZ REMARK 470 GLN A 192 CG CD OE1 NE2 REMARK 470 LYS A 301 CG CD CE NZ REMARK 470 GLU A 381 CG CD OE1 OE2 REMARK 470 LYS A 422 CG CD CE NZ REMARK 470 LYS A 426 CG CD CE NZ REMARK 470 ARG A 510 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 514 CG CD CE NZ REMARK 470 LYS A 615 CG CD CE NZ REMARK 470 LYS A 672 CG CD CE NZ REMARK 470 LYS A 691 CG CD CE NZ REMARK 470 GLU A 693 CG CD OE1 OE2 REMARK 470 LYS A 696 CG CD CE NZ REMARK 470 LYS A 725 CG CD CE NZ REMARK 470 LYS A 726 CG CD CE NZ REMARK 470 LYS A 761 CG CD CE NZ REMARK 470 LYS A 767 CG CD CE NZ REMARK 470 LYS A 770 CG CD CE NZ REMARK 470 LYS A 778 CG CD CE NZ REMARK 470 LYS A 811 CG CD CE NZ REMARK 470 LYS A 856 CG CD CE NZ REMARK 470 GLU A 859 CG CD OE1 OE2 REMARK 470 LEU A 909 CG CD1 CD2 REMARK 470 GLU A 937 CG CD OE1 OE2 REMARK 470 ASN A 938 CG OD1 ND2 REMARK 470 LYS A 945 CG CD CE NZ REMARK 470 GLU A 949 CG CD OE1 OE2 REMARK 470 LYS A 952 CG CD CE NZ REMARK 470 LYS A 955 CG CD CE NZ REMARK 470 LYS A1011 CG CD CE NZ REMARK 470 LYS A1023 CG CD CE NZ REMARK 470 LYS A1042 CG CD CE NZ REMARK 470 LYS A1044 CG CD CE NZ REMARK 470 HIS A1046 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A1051 CG CD CE NZ REMARK 470 LYS A1052 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 O GLU A 507 OG1 THR A 511 2.03 REMARK 500 OH TYR A 5 O GLY A 469 2.07 REMARK 500 OD1 ASP A 566 OG SER A 568 2.07 REMARK 500 OP1 DA C 18 OG1 THR A 392 2.07 REMARK 500 OP2 C B 45 NH1 ARG A 792 2.07 REMARK 500 OD2 ASP A 1010 NE ARG A 1012 2.10 REMARK 500 O SER A 453 OG SER A 457 2.13 REMARK 500 O LYS A 37 NH1 ARG A 452 2.14 REMARK 500 O ASN A 658 OG SER A 662 2.16 REMARK 500 O GLN A 282 N ASN A 286 2.17 REMARK 500 OP1 C B 4 ND2 ASN A 394 2.17 REMARK 500 NZ LYS A 954 O ASP A 987 2.18 REMARK 500 NE2 GLN A 137 OD1 ASN A 141 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 G B 1 P G B 1 OP3 -0.128 REMARK 500 U B 3 C1' U B 3 N1 0.091 REMARK 500 U B 5 C1' U B 5 N1 0.096 REMARK 500 G B 6 C1' G B 6 N9 -0.086 REMARK 500 U B 8 C1' U B 8 N1 0.092 REMARK 500 U B 10 C1' U B 10 N1 0.091 REMARK 500 U B 12 C1' U B 12 N1 0.100 REMARK 500 U B 18 C1' U B 18 N1 0.096 REMARK 500 DA C 24 C1' DA C 24 N9 -0.085 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 C B 15 O5' - P - OP1 ANGL. DEV. = -6.0 DEGREES REMARK 500 C B 45 C2 - N1 - C1' ANGL. DEV. = 9.0 DEGREES REMARK 500 A B 63 O4' - C1' - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 DA C 17 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DT C 20 O4' - C1' - N1 ANGL. DEV. = 2.0 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 TYR A 211 6.14 -65.36 REMARK 500 PRO A 215 -169.65 -75.45 REMARK 500 GLU A 231 0.17 -63.29 REMARK 500 LYS A 292 -80.07 -57.17 REMARK 500 ILE A 357 -72.11 -64.86 REMARK 500 ASN A 372 6.93 52.71 REMARK 500 GLU A 374 75.62 -110.93 REMARK 500 ASN A 385 36.15 -90.05 REMARK 500 THR A 410 -168.70 -74.87 REMARK 500 PRO A 425 173.86 -54.61 REMARK 500 ASN A 516 67.79 -67.81 REMARK 500 LEU A 520 58.63 -98.58 REMARK 500 SER A 537 -23.32 -148.29 REMARK 500 LYS A 583 -73.95 -67.60 REMARK 500 ARG A 644 -78.51 -87.70 REMARK 500 PHE A 683 -61.68 -94.77 REMARK 500 GLU A 693 75.12 -69.48 REMARK 500 HIS A 701 -62.46 -95.30 REMARK 500 ARG A 781 172.91 -59.66 REMARK 500 ASN A 806 -75.38 -76.49 REMARK 500 SER A 823 72.63 67.17 REMARK 500 TYR A 847 44.75 -106.88 REMARK 500 SER A 908 39.25 83.93 REMARK 500 ASP A 919 76.77 -102.77 REMARK 500 ASN A 920 62.39 60.80 REMARK 500 VAL A 933 97.77 -65.99 REMARK 500 ASN A 938 15.20 -143.97 REMARK 500 ALA A 964 168.37 -49.93 REMARK 500 ASN A 969 -13.29 82.49 REMARK 500 REMARK 500 REMARK: NULL DBREF 8Y0D B 1 74 PDB 8Y0D 8Y0D 1 74 DBREF 8Y0D C 9 28 PDB 8Y0D 8Y0D 9 28 DBREF 8Y0D A 1 1053 UNP J7RUA5 CAS9_STAAU 1 1053 SEQADV 8Y0D ALA A 580 UNP J7RUA5 ASN 580 CONFLICT SEQADV 8Y0D ALA A 946 UNP J7RUA5 CYS 946 CONFLICT SEQRES 1 B 74 G G U C U G C U A U U U A SEQRES 2 B 74 A C U U U A C G U U U U A SEQRES 3 B 74 G U A C U C U G G A A A C SEQRES 4 B 74 A G A A U C U A C U A A A SEQRES 5 B 74 A C A A G G C A A A A U G SEQRES 6 B 74 C C G U G U U U C SEQRES 1 C 20 DG DT DA DA DA DG DT DT DA DA DA DT DA SEQRES 2 C 20 DG DC DA DG DA DC DC SEQRES 1 A 1053 MET LYS ARG ASN TYR ILE LEU GLY LEU ASP ILE GLY ILE SEQRES 2 A 1053 THR SER VAL GLY TYR GLY ILE ILE ASP TYR GLU THR ARG SEQRES 3 A 1053 ASP VAL ILE ASP ALA GLY VAL ARG LEU PHE LYS GLU ALA SEQRES 4 A 1053 ASN VAL GLU ASN ASN GLU GLY ARG ARG SER LYS ARG GLY SEQRES 5 A 1053 ALA ARG ARG LEU LYS ARG ARG ARG ARG HIS ARG ILE GLN SEQRES 6 A 1053 ARG VAL LYS LYS LEU LEU PHE ASP TYR ASN LEU LEU THR SEQRES 7 A 1053 ASP HIS SER GLU LEU SER GLY ILE ASN PRO TYR GLU ALA SEQRES 8 A 1053 ARG VAL LYS GLY LEU SER GLN LYS LEU SER GLU GLU GLU SEQRES 9 A 1053 PHE SER ALA ALA LEU LEU HIS LEU ALA LYS ARG ARG GLY SEQRES 10 A 1053 VAL HIS ASN VAL ASN GLU VAL GLU GLU ASP THR GLY ASN SEQRES 11 A 1053 GLU LEU SER THR LYS GLU GLN ILE SER ARG ASN SER LYS SEQRES 12 A 1053 ALA LEU GLU GLU LYS TYR VAL ALA GLU LEU GLN LEU GLU SEQRES 13 A 1053 ARG LEU LYS LYS ASP GLY GLU VAL ARG GLY SER ILE ASN SEQRES 14 A 1053 ARG PHE LYS THR SER ASP TYR VAL LYS GLU ALA LYS GLN SEQRES 15 A 1053 LEU LEU LYS VAL GLN LYS ALA TYR HIS GLN LEU ASP GLN SEQRES 16 A 1053 SER PHE ILE ASP THR TYR ILE ASP LEU LEU GLU THR ARG SEQRES 17 A 1053 ARG THR TYR TYR GLU GLY PRO GLY GLU GLY SER PRO PHE SEQRES 18 A 1053 GLY TRP LYS ASP ILE LYS GLU TRP TYR GLU MET LEU MET SEQRES 19 A 1053 GLY HIS CYS THR TYR PHE PRO GLU GLU LEU ARG SER VAL SEQRES 20 A 1053 LYS TYR ALA TYR ASN ALA ASP LEU TYR ASN ALA LEU ASN SEQRES 21 A 1053 ASP LEU ASN ASN LEU VAL ILE THR ARG ASP GLU ASN GLU SEQRES 22 A 1053 LYS LEU GLU TYR TYR GLU LYS PHE GLN ILE ILE GLU ASN SEQRES 23 A 1053 VAL PHE LYS GLN LYS LYS LYS PRO THR LEU LYS GLN ILE SEQRES 24 A 1053 ALA LYS GLU ILE LEU VAL ASN GLU GLU ASP ILE LYS GLY SEQRES 25 A 1053 TYR ARG VAL THR SER THR GLY LYS PRO GLU PHE THR ASN SEQRES 26 A 1053 LEU LYS VAL TYR HIS ASP ILE LYS ASP ILE THR ALA ARG SEQRES 27 A 1053 LYS GLU ILE ILE GLU ASN ALA GLU LEU LEU ASP GLN ILE SEQRES 28 A 1053 ALA LYS ILE LEU THR ILE TYR GLN SER SER GLU ASP ILE SEQRES 29 A 1053 GLN GLU GLU LEU THR ASN LEU ASN SER GLU LEU THR GLN SEQRES 30 A 1053 GLU GLU ILE GLU GLN ILE SER ASN LEU LYS GLY TYR THR SEQRES 31 A 1053 GLY THR HIS ASN LEU SER LEU LYS ALA ILE ASN LEU ILE SEQRES 32 A 1053 LEU ASP GLU LEU TRP HIS THR ASN ASP ASN GLN ILE ALA SEQRES 33 A 1053 ILE PHE ASN ARG LEU LYS LEU VAL PRO LYS LYS VAL ASP SEQRES 34 A 1053 LEU SER GLN GLN LYS GLU ILE PRO THR THR LEU VAL ASP SEQRES 35 A 1053 ASP PHE ILE LEU SER PRO VAL VAL LYS ARG SER PHE ILE SEQRES 36 A 1053 GLN SER ILE LYS VAL ILE ASN ALA ILE ILE LYS LYS TYR SEQRES 37 A 1053 GLY LEU PRO ASN ASP ILE ILE ILE GLU LEU ALA ARG GLU SEQRES 38 A 1053 LYS ASN SER LYS ASP ALA GLN LYS MET ILE ASN GLU MET SEQRES 39 A 1053 GLN LYS ARG ASN ARG GLN THR ASN GLU ARG ILE GLU GLU SEQRES 40 A 1053 ILE ILE ARG THR THR GLY LYS GLU ASN ALA LYS TYR LEU SEQRES 41 A 1053 ILE GLU LYS ILE LYS LEU HIS ASP MET GLN GLU GLY LYS SEQRES 42 A 1053 CYS LEU TYR SER LEU GLU ALA ILE PRO LEU GLU ASP LEU SEQRES 43 A 1053 LEU ASN ASN PRO PHE ASN TYR GLU VAL ASP HIS ILE ILE SEQRES 44 A 1053 PRO ARG SER VAL SER PHE ASP ASN SER PHE ASN ASN LYS SEQRES 45 A 1053 VAL LEU VAL LYS GLN GLU GLU ALA SER LYS LYS GLY ASN SEQRES 46 A 1053 ARG THR PRO PHE GLN TYR LEU SER SER SER ASP SER LYS SEQRES 47 A 1053 ILE SER TYR GLU THR PHE LYS LYS HIS ILE LEU ASN LEU SEQRES 48 A 1053 ALA LYS GLY LYS GLY ARG ILE SER LYS THR LYS LYS GLU SEQRES 49 A 1053 TYR LEU LEU GLU GLU ARG ASP ILE ASN ARG PHE SER VAL SEQRES 50 A 1053 GLN LYS ASP PHE ILE ASN ARG ASN LEU VAL ASP THR ARG SEQRES 51 A 1053 TYR ALA THR ARG GLY LEU MET ASN LEU LEU ARG SER TYR SEQRES 52 A 1053 PHE ARG VAL ASN ASN LEU ASP VAL LYS VAL LYS SER ILE SEQRES 53 A 1053 ASN GLY GLY PHE THR SER PHE LEU ARG ARG LYS TRP LYS SEQRES 54 A 1053 PHE LYS LYS GLU ARG ASN LYS GLY TYR LYS HIS HIS ALA SEQRES 55 A 1053 GLU ASP ALA LEU ILE ILE ALA ASN ALA ASP PHE ILE PHE SEQRES 56 A 1053 LYS GLU TRP LYS LYS LEU ASP LYS ALA LYS LYS VAL MET SEQRES 57 A 1053 GLU ASN GLN MET PHE GLU GLU LYS GLN ALA GLU SER MET SEQRES 58 A 1053 PRO GLU ILE GLU THR GLU GLN GLU TYR LYS GLU ILE PHE SEQRES 59 A 1053 ILE THR PRO HIS GLN ILE LYS HIS ILE LYS ASP PHE LYS SEQRES 60 A 1053 ASP TYR LYS TYR SER HIS ARG VAL ASP LYS LYS PRO ASN SEQRES 61 A 1053 ARG GLU LEU ILE ASN ASP THR LEU TYR SER THR ARG LYS SEQRES 62 A 1053 ASP ASP LYS GLY ASN THR LEU ILE VAL ASN ASN LEU ASN SEQRES 63 A 1053 GLY LEU TYR ASP LYS ASP ASN ASP LYS LEU LYS LYS LEU SEQRES 64 A 1053 ILE ASN LYS SER PRO GLU LYS LEU LEU MET TYR HIS HIS SEQRES 65 A 1053 ASP PRO GLN THR TYR GLN LYS LEU LYS LEU ILE MET GLU SEQRES 66 A 1053 GLN TYR GLY ASP GLU LYS ASN PRO LEU TYR LYS TYR TYR SEQRES 67 A 1053 GLU GLU THR GLY ASN TYR LEU THR LYS TYR SER LYS LYS SEQRES 68 A 1053 ASP ASN GLY PRO VAL ILE LYS LYS ILE LYS TYR TYR GLY SEQRES 69 A 1053 ASN LYS LEU ASN ALA HIS LEU ASP ILE THR ASP ASP TYR SEQRES 70 A 1053 PRO ASN SER ARG ASN LYS VAL VAL LYS LEU SER LEU LYS SEQRES 71 A 1053 PRO TYR ARG PHE ASP VAL TYR LEU ASP ASN GLY VAL TYR SEQRES 72 A 1053 LYS PHE VAL THR VAL LYS ASN LEU ASP VAL ILE LYS LYS SEQRES 73 A 1053 GLU ASN TYR TYR GLU VAL ASN SER LYS ALA TYR GLU GLU SEQRES 74 A 1053 ALA LYS LYS LEU LYS LYS ILE SER ASN GLN ALA GLU PHE SEQRES 75 A 1053 ILE ALA SER PHE TYR ASN ASN ASP LEU ILE LYS ILE ASN SEQRES 76 A 1053 GLY GLU LEU TYR ARG VAL ILE GLY VAL ASN ASN ASP LEU SEQRES 77 A 1053 LEU ASN ARG ILE GLU VAL ASN MET ILE ASP ILE THR TYR SEQRES 78 A 1053 ARG GLU TYR LEU GLU ASN MET ASN ASP LYS ARG PRO PRO SEQRES 79 A 1053 ARG ILE ILE LYS THR ILE ALA SER LYS THR GLN SER ILE SEQRES 80 A 1053 LYS LYS TYR SER THR ASP ILE LEU GLY ASN LEU TYR GLU SEQRES 81 A 1053 VAL LYS SER LYS LYS HIS PRO GLN ILE ILE LYS LYS GLY FORMUL 4 HOH *5(H2 O) HELIX 1 AA1 VAL A 41 ASN A 75 1 35 HELIX 2 AA2 ASN A 87 GLN A 98 1 12 HELIX 3 AA3 GLU A 103 ARG A 115 1 13 HELIX 4 AA4 SER A 133 GLU A 146 1 14 HELIX 5 AA5 TYR A 149 ASP A 161 1 13 HELIX 6 AA6 GLY A 166 ARG A 170 5 5 HELIX 7 AA7 LYS A 172 LYS A 188 1 17 HELIX 8 AA8 SER A 196 THR A 207 1 12 HELIX 9 AA9 ILE A 226 GLU A 231 1 6 HELIX 10 AB1 ALA A 250 ASN A 264 1 15 HELIX 11 AB2 GLU A 276 VAL A 287 1 12 HELIX 12 AB3 THR A 295 ILE A 303 1 9 HELIX 13 AB4 LEU A 326 ASP A 334 1 9 HELIX 14 AB5 ARG A 338 GLU A 343 1 6 HELIX 15 AB6 ASN A 344 TYR A 358 1 15 HELIX 16 AB7 SER A 360 ASN A 370 1 11 HELIX 17 AB8 THR A 376 SER A 384 1 9 HELIX 18 AB9 LYS A 398 ILE A 400 5 3 HELIX 19 AC1 LEU A 404 HIS A 409 1 6 HELIX 20 AC2 ASN A 413 LEU A 421 1 9 HELIX 21 AC3 THR A 438 ASP A 442 5 5 HELIX 22 AC4 SER A 447 GLY A 469 1 23 HELIX 23 AC5 ASN A 502 THR A 512 1 11 HELIX 24 AC6 LEU A 520 GLU A 531 1 12 HELIX 25 AC7 PRO A 542 ASN A 549 1 8 HELIX 26 AC8 SER A 568 ASN A 570 5 3 HELIX 27 AC9 GLN A 577 GLY A 584 1 8 HELIX 28 AD1 THR A 587 SER A 594 1 8 HELIX 29 AD2 SER A 600 LYS A 613 1 14 HELIX 30 AD3 SER A 619 LEU A 627 1 9 HELIX 31 AD4 ARG A 634 ASN A 645 1 12 HELIX 32 AD5 THR A 653 ASN A 667 1 15 HELIX 33 AD6 GLY A 679 TRP A 688 1 10 HELIX 34 AD7 GLY A 697 HIS A 700 5 4 HELIX 35 AD8 HIS A 701 TRP A 718 1 18 HELIX 36 AD9 THR A 746 PHE A 754 1 9 HELIX 37 AE1 ILE A 760 PHE A 766 1 7 HELIX 38 AE2 ASP A 814 ASN A 821 1 8 HELIX 39 AE3 SER A 823 LYS A 826 5 4 HELIX 40 AE4 LEU A 827 HIS A 832 1 6 HELIX 41 AE5 ASP A 833 TYR A 847 1 15 HELIX 42 AE6 ASN A 852 GLY A 862 1 11 HELIX 43 AE7 THR A 894 TYR A 897 5 4 HELIX 44 AE8 ASN A 943 LYS A 954 1 12 HELIX 45 AE9 THR A 1000 ASN A 1009 1 10 SHEET 1 AA1 6 LYS A 672 SER A 675 0 SHEET 2 AA1 6 ASP A 473 LEU A 478 1 N ILE A 474 O LYS A 672 SHEET 3 AA1 6 TYR A 5 ILE A 11 1 N LEU A 7 O ASP A 473 SHEET 4 AA1 6 SER A 15 ASP A 22 -1 O ILE A 21 N ILE A 6 SHEET 5 AA1 6 VAL A 28 LEU A 35 -1 O ARG A 34 N VAL A 16 SHEET 6 AA1 6 LYS A 770 HIS A 773 1 O SER A 772 N LEU A 35 SHEET 1 AA2 2 ARG A 245 VAL A 247 0 SHEET 2 AA2 2 THR A 392 SER A 396 -1 O HIS A 393 N SER A 246 SHEET 1 AA3 2 TYR A 553 HIS A 557 0 SHEET 2 AA3 2 LYS A 572 LYS A 576 -1 O VAL A 575 N GLU A 554 SHEET 1 AA4 3 SER A 790 LYS A 793 0 SHEET 2 AA4 3 THR A 799 LEU A 805 -1 O LEU A 800 N ARG A 792 SHEET 3 AA4 3 ILE A 880 TYR A 883 -1 O TYR A 882 N ASN A 803 SHEET 1 AA5 2 LEU A 891 ASP A 892 0 SHEET 2 AA5 2 VAL A 905 LYS A 906 -1 O LYS A 906 N LEU A 891 SHEET 1 AA6 2 PRO A 911 ARG A 913 0 SHEET 2 AA6 2 VAL A 928 LYS A 929 -1 O VAL A 928 N ARG A 913 SHEET 1 AA7 3 VAL A 922 PHE A 925 0 SHEET 2 AA7 3 ASP A 915 ASP A 919 -1 N TYR A 917 O LYS A 924 SHEET 3 AA7 3 GLU A 961 SER A 965 -1 O GLU A 961 N LEU A 918 SHEET 1 AA8 3 ILE A 934 LYS A 935 0 SHEET 2 AA8 3 TYR A 940 GLU A 941 -1 N GLU A 941 O ILE A 934 SHEET 3 AA8 3 ILE A1049 ILE A1050 -1 O ILE A1050 N TYR A 940 SHEET 1 AA9 5 ARG A 991 ASN A 995 0 SHEET 2 AA9 5 GLU A 977 ASN A 986 -1 N ASN A 986 O ARG A 991 SHEET 3 AA9 5 LEU A 971 ILE A 974 -1 N ILE A 972 O TYR A 979 SHEET 4 AA9 5 ILE A1027 THR A1032 -1 O LYS A1028 N LYS A 973 SHEET 5 AA9 5 LEU A1038 GLU A1040 -1 O TYR A1039 N SER A1031 CRYST1 68.962 145.567 97.528 90.00 93.99 90.00 P 1 21 1 2 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 0.014501 0.000000 0.001010 0.00000 SCALE2 0.000000 0.006870 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010278 0.00000 TER 1531 U B 73 TER 1927 DC C 27 TER 10021 LYS A1052 HETATM10022 O HOH B 101 13.417 -13.719 28.310 1.00 30.00 O HETATM10023 O HOH A1101 42.471 -19.327 30.986 1.00 30.00 O HETATM10024 O HOH A1102 39.217 11.334 -13.835 1.00 30.00 O HETATM10025 O HOH A1103 22.074 -24.033 49.786 1.00 30.00 O HETATM10026 O HOH A1104 32.138 -12.587 30.922 1.00 30.00 O MASTER 438 0 0 45 28 0 0 610023 3 0 89 END