HEADER DNA BINDING PROTEIN 04-AUG-23 8Q3Z TITLE CRYSTAL STRUCTURE OF CA4-BOUND CAN2 FROM THERMOANAEROBACTER BROCKII COMPND MOL_ID: 1; COMPND 2 MOLECULE: DUF1887 FAMILY PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: CYCLIC TETRAADENOSINE MONOPHOSPHATE (CA4); COMPND 7 CHAIN: X; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOANAEROBACTER BROCKII SUBSP. FINNII AKO-1; SOURCE 3 ORGANISM_TAXID: 509193; SOURCE 4 ATCC: 43586; SOURCE 5 GENE: THEBR_0943; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630 KEYWDS CAN2, CYCLIC OLIGOADENYLATES, CA4, CARF, CRISPR ANCILLARY NUCLEASE, KEYWDS 2 DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR K.JUNGFER,A.SIGG,M.JINEK REVDAT 3 24-JAN-24 8Q3Z 1 JRNL REVDAT 2 13-DEC-23 8Q3Z 1 JRNL REVDAT 1 22-NOV-23 8Q3Z 0 JRNL AUTH K.JUNGFER,A.SIGG,M.JINEK JRNL TITL SUBSTRATE SELECTIVITY AND CATALYTIC ACTIVATION OF THE TYPE JRNL TITL 2 III CRISPR ANCILLARY NUCLEASE CAN2. JRNL REF NUCLEIC ACIDS RES. V. 52 462 2024 JRNL REFN ESSN 1362-4962 JRNL PMID 38033326 JRNL DOI 10.1093/NAR/GKAD1102 REMARK 2 REMARK 2 RESOLUTION. 3.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20_4459 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) : 3.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 93.77 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.6 REMARK 3 NUMBER OF REFLECTIONS : 14131 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.225 REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 709 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 93.7700 - 5.3900 1.00 2855 152 0.1821 0.2110 REMARK 3 2 5.3900 - 4.2800 1.00 2797 155 0.1964 0.2216 REMARK 3 3 4.2800 - 3.7400 0.99 2765 136 0.2385 0.2839 REMARK 3 4 3.7400 - 3.4000 0.80 2214 118 0.3050 0.3621 REMARK 3 5 3.4000 - 3.1500 1.00 2791 148 0.3136 0.3402 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) : 0.487 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.746 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 71.69 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 76.71 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 : 0.004 7484 REMARK 3 ANGLE : 0.684 10084 REMARK 3 CHIRALITY : 0.046 1090 REMARK 3 PLANARITY : 0.003 1256 REMARK 3 DIHEDRAL : 12.461 2806 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 1 THROUGH 129 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.8968 -10.1231 50.8781 REMARK 3 T TENSOR REMARK 3 T11: 0.5210 T22: 1.3633 REMARK 3 T33: 0.6321 T12: -0.1014 REMARK 3 T13: -0.0957 T23: 0.2594 REMARK 3 L TENSOR REMARK 3 L11: 1.3921 L22: 3.8417 REMARK 3 L33: 2.0493 L12: -0.9277 REMARK 3 L13: 0.3047 L23: 0.4602 REMARK 3 S TENSOR REMARK 3 S11: 0.1465 S12: -1.1193 S13: -0.1440 REMARK 3 S21: 0.5794 S22: -0.3267 S23: -0.4480 REMARK 3 S31: 0.1645 S32: 0.6153 S33: -0.0626 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 130 THROUGH 362 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.4289 -1.5852 7.4164 REMARK 3 T TENSOR REMARK 3 T11: 0.6800 T22: 0.4447 REMARK 3 T33: 0.7043 T12: 0.0550 REMARK 3 T13: 0.0950 T23: 0.1218 REMARK 3 L TENSOR REMARK 3 L11: 2.2044 L22: 0.3907 REMARK 3 L33: 4.6311 L12: 0.0114 REMARK 3 L13: -1.2253 L23: -0.0571 REMARK 3 S TENSOR REMARK 3 S11: 0.1476 S12: -0.0664 S13: -0.0695 REMARK 3 S21: -0.2370 S22: -0.1712 S23: -0.2193 REMARK 3 S31: -0.1636 S32: 0.2395 S33: -0.0001 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 363 THROUGH 437 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.6303 3.5146 19.2041 REMARK 3 T TENSOR REMARK 3 T11: 0.7190 T22: 0.5327 REMARK 3 T33: 0.5645 T12: 0.0620 REMARK 3 T13: -0.0286 T23: 0.0546 REMARK 3 L TENSOR REMARK 3 L11: 2.2155 L22: 1.9872 REMARK 3 L33: 2.0304 L12: 0.2368 REMARK 3 L13: -0.5807 L23: -1.0559 REMARK 3 S TENSOR REMARK 3 S11: 0.2800 S12: -0.4673 S13: 0.2025 REMARK 3 S21: -0.0006 S22: -0.2410 S23: 0.1421 REMARK 3 S31: -0.6316 S32: -0.2273 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 154 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.1191 -0.5415 48.7331 REMARK 3 T TENSOR REMARK 3 T11: 0.5742 T22: 1.0771 REMARK 3 T33: 0.6084 T12: -0.0893 REMARK 3 T13: 0.0752 T23: -0.0257 REMARK 3 L TENSOR REMARK 3 L11: 2.7776 L22: 3.0476 REMARK 3 L33: 3.7397 L12: 0.3201 REMARK 3 L13: -0.2787 L23: -0.4825 REMARK 3 S TENSOR REMARK 3 S11: 0.1450 S12: -0.8617 S13: -0.0166 REMARK 3 S21: 0.5808 S22: -0.0861 S23: 0.4415 REMARK 3 S31: -0.1981 S32: -0.3035 S33: -0.0009 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 155 THROUGH 317 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.2705 -17.3769 0.6042 REMARK 3 T TENSOR REMARK 3 T11: 0.6072 T22: 0.3407 REMARK 3 T33: 0.8038 T12: 0.0510 REMARK 3 T13: -0.0460 T23: -0.0323 REMARK 3 L TENSOR REMARK 3 L11: 2.7501 L22: 3.7437 REMARK 3 L33: 5.2324 L12: 0.2224 REMARK 3 L13: 0.0368 L23: 2.5670 REMARK 3 S TENSOR REMARK 3 S11: 0.0213 S12: 0.4934 S13: -0.2335 REMARK 3 S21: -0.2709 S22: -0.1062 S23: -0.1539 REMARK 3 S31: 0.3592 S32: -0.3819 S33: 0.0225 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 318 THROUGH 437 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.7405 -16.3281 22.1649 REMARK 3 T TENSOR REMARK 3 T11: 0.6335 T22: 0.4694 REMARK 3 T33: 0.6253 T12: 0.0372 REMARK 3 T13: -0.0592 T23: 0.0823 REMARK 3 L TENSOR REMARK 3 L11: 2.0842 L22: 2.5055 REMARK 3 L33: 2.5935 L12: -0.0217 REMARK 3 L13: 0.4726 L23: -0.0455 REMARK 3 S TENSOR REMARK 3 S11: -0.1251 S12: -0.2029 S13: -0.2762 REMARK 3 S21: -0.0070 S22: 0.0814 S23: 0.2642 REMARK 3 S31: 0.2469 S32: 0.3292 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 8Q3Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-AUG-23. REMARK 100 THE DEPOSITION ID IS D_1292132474. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-MAY-22 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS 20220110 REMARK 200 DATA SCALING SOFTWARE : AUTOPROC 20230726 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14187 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.150 REMARK 200 RESOLUTION RANGE LOW (A) : 93.770 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.7 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.13800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : 0.90500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.240 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.7.16 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: PLATE-SHAPED CRYSTALS REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MM TRIS PH 8, 17.1% (V/V) PEG 550 REMARK 280 MME, 4.3% (W/V) PEG 2000, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293.15K 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 39.56650 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: 8600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34790 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, X 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 400 REMARK 400 COMPOUND REMARK 400 CRISPR-CAS SYSTEMS PROVIDE BACTERIA WITH ADAPTIVE IMMUNITY AGAINST REMARK 400 BACTERIOPHAGES. CYCLIC OLIGOADENYLATE SIGNALING WAS FOUND TO BE REMARK 400 ESSENTIAL FOR THE TYPE III SYSTEM AGAINST THE JUMBO PHAGE. REMARK 400 REMARK 400 THE CYCLIC TETRAADENOSINE MONOPHOSPHATE (CA4) IS POLYCYCLIC, A REMARK 400 MEMBER OF ANTIVIRAL CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: CYCLIC TETRAADENOSINE MONOPHOSPHATE (CA4) REMARK 400 CHAIN: X REMARK 400 COMPONENT_1: POLYMER REMARK 400 DESCRIPTION: Cyclic oligoadenylates such as c-tetraAMP were found REMARK 400 to be novel bacterial second messengers. Antiviral REMARK 400 in context of signalling for Type III CRISPR-Cas REMARK 400 systems. 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 -1 REMARK 465 ASN A 0 REMARK 465 SER B -1 REMARK 465 ASN B 0 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 P A X 1 O3' A X 4 1.67 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 A X 1 P A X 1 O5' 0.073 REMARK 500 A X 1 C2' A X 1 C1' -0.063 REMARK 500 A X 1 N1 A X 1 C2 -0.170 REMARK 500 A X 1 N3 A X 1 C4 0.141 REMARK 500 A X 1 C4 A X 1 C5 0.068 REMARK 500 A X 1 C5 A X 1 C6 -0.055 REMARK 500 A X 1 C6 A X 1 N1 -0.206 REMARK 500 A X 1 C5 A X 1 N7 0.202 REMARK 500 A X 1 N7 A X 1 C8 0.189 REMARK 500 A X 1 C8 A X 1 N9 -0.117 REMARK 500 A X 1 N9 A X 1 C4 -0.213 REMARK 500 A X 1 C6 A X 1 N6 0.123 REMARK 500 A X 2 P A X 2 O5' 0.071 REMARK 500 A X 2 C2' A X 2 C1' -0.051 REMARK 500 A X 2 C5 A X 2 N7 0.101 REMARK 500 A X 2 N7 A X 2 C8 0.050 REMARK 500 A X 2 C8 A X 2 N9 -0.076 REMARK 500 A X 2 N9 A X 2 C4 -0.055 REMARK 500 A X 2 C6 A X 2 N6 0.121 REMARK 500 A X 3 P A X 3 O5' 0.075 REMARK 500 A X 3 C5 A X 3 N7 0.131 REMARK 500 A X 3 N7 A X 3 C8 0.051 REMARK 500 A X 3 C8 A X 3 N9 -0.093 REMARK 500 A X 3 N9 A X 3 C4 -0.097 REMARK 500 A X 3 C6 A X 3 N6 0.115 REMARK 500 A X 4 P A X 4 O5' 0.074 REMARK 500 A X 4 C3' A X 4 C2' -0.070 REMARK 500 A X 4 C2' A X 4 C1' -0.062 REMARK 500 A X 4 N1 A X 4 C2 -0.079 REMARK 500 A X 4 C2 A X 4 N3 0.058 REMARK 500 A X 4 N3 A X 4 C4 0.106 REMARK 500 A X 4 C4 A X 4 C5 0.057 REMARK 500 A X 4 C5 A X 4 C6 -0.127 REMARK 500 A X 4 C6 A X 4 N1 -0.185 REMARK 500 A X 4 C6 A X 4 N6 0.115 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 A X 1 OP1 - P - OP2 ANGL. DEV. = -11.9 DEGREES REMARK 500 A X 1 C1' - O4' - C4' ANGL. DEV. = -5.6 DEGREES REMARK 500 A X 1 N1 - C2 - N3 ANGL. DEV. = -5.9 DEGREES REMARK 500 A X 1 C2 - N3 - C4 ANGL. DEV. = 13.2 DEGREES REMARK 500 A X 1 N3 - C4 - C5 ANGL. DEV. = -24.6 DEGREES REMARK 500 A X 1 C4 - C5 - C6 ANGL. DEV. = 5.8 DEGREES REMARK 500 A X 1 C5 - C6 - N1 ANGL. DEV. = 7.9 DEGREES REMARK 500 A X 1 C4 - C5 - N7 ANGL. DEV. = -4.6 DEGREES REMARK 500 A X 1 C5 - N7 - C8 ANGL. DEV. = -7.0 DEGREES REMARK 500 A X 1 N7 - C8 - N9 ANGL. DEV. = -8.4 DEGREES REMARK 500 A X 1 C8 - N9 - C4 ANGL. DEV. = 22.3 DEGREES REMARK 500 A X 1 N3 - C4 - N9 ANGL. DEV. = 26.9 DEGREES REMARK 500 A X 1 C5 - C6 - N6 ANGL. DEV. = -7.2 DEGREES REMARK 500 A X 1 C8 - N9 - C1' ANGL. DEV. = -12.8 DEGREES REMARK 500 A X 2 O3' - P - O5' ANGL. DEV. = 14.1 DEGREES REMARK 500 A X 2 OP1 - P - OP2 ANGL. DEV. = -10.7 DEGREES REMARK 500 A X 2 N7 - C8 - N9 ANGL. DEV. = -3.6 DEGREES REMARK 500 A X 2 C8 - N9 - C4 ANGL. DEV. = 10.4 DEGREES REMARK 500 A X 2 N9 - C4 - C5 ANGL. DEV. = -2.8 DEGREES REMARK 500 A X 3 O3' - P - O5' ANGL. DEV. = 15.6 DEGREES REMARK 500 A X 3 OP1 - P - OP2 ANGL. DEV. = -12.3 DEGREES REMARK 500 A X 3 C1' - O4' - C4' ANGL. DEV. = -5.5 DEGREES REMARK 500 A X 3 C5 - N7 - C8 ANGL. DEV. = -3.1 DEGREES REMARK 500 A X 3 N7 - C8 - N9 ANGL. DEV. = -4.6 DEGREES REMARK 500 A X 3 C8 - N9 - C4 ANGL. DEV. = 14.5 DEGREES REMARK 500 A X 3 N9 - C4 - C5 ANGL. DEV. = -4.3 DEGREES REMARK 500 A X 4 O3' - P - O5' ANGL. DEV. = 14.2 DEGREES REMARK 500 A X 4 OP1 - P - OP2 ANGL. DEV. = -11.8 DEGREES REMARK 500 A X 4 C1' - O4' - C4' ANGL. DEV. = -7.6 DEGREES REMARK 500 A X 4 C6 - N1 - C2 ANGL. DEV. = 7.6 DEGREES REMARK 500 A X 4 N3 - C4 - C5 ANGL. DEV. = -11.4 DEGREES REMARK 500 A X 4 C4 - C5 - C6 ANGL. DEV. = 8.5 DEGREES REMARK 500 A X 4 C4 - C5 - N7 ANGL. DEV. = -7.0 DEGREES REMARK 500 A X 4 C5 - N7 - C8 ANGL. DEV. = 12.7 DEGREES REMARK 500 A X 4 N7 - C8 - N9 ANGL. DEV. = -15.0 DEGREES REMARK 500 A X 4 C8 - N9 - C4 ANGL. DEV. = 13.2 DEGREES REMARK 500 A X 4 N9 - C4 - C5 ANGL. DEV. = -3.9 DEGREES REMARK 500 A X 4 N3 - C4 - N9 ANGL. DEV. = 15.3 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 ASN A 61 -136.54 54.47 REMARK 500 PHE A 117 -58.07 -121.32 REMARK 500 PHE A 181 62.53 -111.63 REMARK 500 ASP A 183 16.30 56.48 REMARK 500 SER A 184 -4.99 -142.71 REMARK 500 ASN A 240 -119.08 49.16 REMARK 500 ASP A 271 79.00 -103.71 REMARK 500 SER A 329 66.81 62.05 REMARK 500 ASN B 61 -111.77 54.30 REMARK 500 ASP B 183 17.91 56.67 REMARK 500 LYS B 221 44.29 -150.70 REMARK 500 ASN B 240 -128.87 60.31 REMARK 500 THR B 359 33.40 -94.43 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 MN A 501 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 343 OD2 REMARK 620 2 LEU A 357 O 82.1 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B 501 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 343 OD2 REMARK 620 2 LEU B 357 O 79.5 REMARK 620 N 1 DBREF 8Q3Z A 1 437 UNP E8URK0 E8URK0_THEBF 1 437 DBREF 8Q3Z B 1 437 UNP E8URK0 E8URK0_THEBF 1 437 DBREF 8Q3Z X 1 4 PDB 8Q3Z 8Q3Z 1 4 SEQADV 8Q3Z SER A -1 UNP E8URK0 EXPRESSION TAG SEQADV 8Q3Z ASN A 0 UNP E8URK0 EXPRESSION TAG SEQADV 8Q3Z SER B -1 UNP E8URK0 EXPRESSION TAG SEQADV 8Q3Z ASN B 0 UNP E8URK0 EXPRESSION TAG SEQRES 1 A 439 SER ASN MET ASN GLU LYS VAL LEU VAL LEU ILE VAL GLY SEQRES 2 A 439 THR ASN PRO LEU PRO ASN TYR VAL VAL GLY SER HIS LEU SEQRES 3 A 439 LYS GLU LYS TYR ASP LYS PHE VAL LEU ILE TYR SER GLU SEQRES 4 A 439 LYS ASN ASP LYS ILE ASN GLN ASN SER THR TYR ASP TYR SEQRES 5 A 439 ALA LYS LYS LEU LYS GLU HIS LEU ASN LEU ASN ASP LYS SEQRES 6 A 439 CYS ILE PHE LEU PRO LEU SER ASP VAL SER ASN SER GLU SEQRES 7 A 439 LYS ILE ILE ASN ASP LEU ARG GLU LYS PHE PRO SER GLU SEQRES 8 A 439 ASP PHE VAL GLU VAL HIS LEU ASN TYR THR GLY GLY THR SEQRES 9 A 439 LYS THR MET VAL VAL HIS ILE TYR ASN PHE LEU LYS GLU SEQRES 10 A 439 LYS PHE LYS ASN ASN LYS ILE LYS PHE GLU GLY SER TYR SEQRES 11 A 439 LEU ASP ALA ARG ASP TYR LYS LEU VAL TYR ASP TYR SER SEQRES 12 A 439 GLU GLU ALA ILE SER LEU LYS ASP THR ILE LYS ILE ASP SEQRES 13 A 439 ILE ASN THR LEU LEU SER ILE HIS LEU TYR GLU ASP ILE SEQRES 14 A 439 HIS PHE GLU PHE TYR ASP THR TYR SER TYR LYS GLN LYS SEQRES 15 A 439 PHE VAL ASP SER PHE ASP LYS ILE SER GLN GLU ILE GLU SEQRES 16 A 439 LYS ALA ILE LYS ASP ASP LYS GLY GLU ASP PHE VAL LYS SEQRES 17 A 439 TRP LEU GLU ASP PRO PHE ARG LYS ILE PHE LYS GLY GLU SEQRES 18 A 439 ASN LYS LEU LEU GLU LYS THR ALA LYS PHE LYS LYS HIS SEQRES 19 A 439 ILE GLU LYS LEU LEU LYS ASP ASN ASP SER SER PRO ILE SEQRES 20 A 439 VAL LYS PHE ASN GLU LYS THR PRO GLN PHE ILE TRP ASP SEQRES 21 A 439 ILE LEU ASN ALA PHE PRO GLU GLY LYS LYS LEU ASN ASP SEQRES 22 A 439 GLY GLN LYS LEU TRP ILE PRO ASP ASP LYS ILE THR ASN SEQRES 23 A 439 ASP ASN LEU SER SER ARG VAL LYS ASP THR VAL GLU PHE SEQRES 24 A 439 LEU ASN GLY LYS TRP PHE GLU TRP TYR VAL TYR SER GLN SEQRES 25 A 439 ILE LYS SER GLU LEU LEU ASP ARG LYS LEU LYS GLU GLY SEQRES 26 A 439 GLU HIS PHE GLY ILE SER LEU LYS ALA GLN LYS LYS ASP SEQRES 27 A 439 SER PRO TYR PHE GLU LEU ASP ILE PHE LEU ILE ASN GLY SEQRES 28 A 439 TYR GLN LEU ILE GLY ILE SER LEU THR THR SER SER THR SEQRES 29 A 439 ARG GLU LEU CYS LYS LEU LYS GLY PHE GLU VAL ILE HIS SEQRES 30 A 439 ARG VAL ARG GLN ILE GLY GLY ASP GLU SER LYS ALA ILE SEQRES 31 A 439 LEU ILE THR GLY MET ASP LYS SER LYS THR GLU ASP LEU SEQRES 32 A 439 GLN LYS ASP LEU ALA TYR GLU THR GLY SER THR GLN LYS SEQRES 33 A 439 ARG PHE VAL VAL PHE GLY ILE ASP ASP TRP ALA ASP ILE SEQRES 34 A 439 GLY SER LYS ILE CYS GLU GLU VAL PHE LYS SEQRES 1 B 439 SER ASN MET ASN GLU LYS VAL LEU VAL LEU ILE VAL GLY SEQRES 2 B 439 THR ASN PRO LEU PRO ASN TYR VAL VAL GLY SER HIS LEU SEQRES 3 B 439 LYS GLU LYS TYR ASP LYS PHE VAL LEU ILE TYR SER GLU SEQRES 4 B 439 LYS ASN ASP LYS ILE ASN GLN ASN SER THR TYR ASP TYR SEQRES 5 B 439 ALA LYS LYS LEU LYS GLU HIS LEU ASN LEU ASN ASP LYS SEQRES 6 B 439 CYS ILE PHE LEU PRO LEU SER ASP VAL SER ASN SER GLU SEQRES 7 B 439 LYS ILE ILE ASN ASP LEU ARG GLU LYS PHE PRO SER GLU SEQRES 8 B 439 ASP PHE VAL GLU VAL HIS LEU ASN TYR THR GLY GLY THR SEQRES 9 B 439 LYS THR MET VAL VAL HIS ILE TYR ASN PHE LEU LYS GLU SEQRES 10 B 439 LYS PHE LYS ASN ASN LYS ILE LYS PHE GLU GLY SER TYR SEQRES 11 B 439 LEU ASP ALA ARG ASP TYR LYS LEU VAL TYR ASP TYR SER SEQRES 12 B 439 GLU GLU ALA ILE SER LEU LYS ASP THR ILE LYS ILE ASP SEQRES 13 B 439 ILE ASN THR LEU LEU SER ILE HIS LEU TYR GLU ASP ILE SEQRES 14 B 439 HIS PHE GLU PHE TYR ASP THR TYR SER TYR LYS GLN LYS SEQRES 15 B 439 PHE VAL ASP SER PHE ASP LYS ILE SER GLN GLU ILE GLU SEQRES 16 B 439 LYS ALA ILE LYS ASP ASP LYS GLY GLU ASP PHE VAL LYS SEQRES 17 B 439 TRP LEU GLU ASP PRO PHE ARG LYS ILE PHE LYS GLY GLU SEQRES 18 B 439 ASN LYS LEU LEU GLU LYS THR ALA LYS PHE LYS LYS HIS SEQRES 19 B 439 ILE GLU LYS LEU LEU LYS ASP ASN ASP SER SER PRO ILE SEQRES 20 B 439 VAL LYS PHE ASN GLU LYS THR PRO GLN PHE ILE TRP ASP SEQRES 21 B 439 ILE LEU ASN ALA PHE PRO GLU GLY LYS LYS LEU ASN ASP SEQRES 22 B 439 GLY GLN LYS LEU TRP ILE PRO ASP ASP LYS ILE THR ASN SEQRES 23 B 439 ASP ASN LEU SER SER ARG VAL LYS ASP THR VAL GLU PHE SEQRES 24 B 439 LEU ASN GLY LYS TRP PHE GLU TRP TYR VAL TYR SER GLN SEQRES 25 B 439 ILE LYS SER GLU LEU LEU ASP ARG LYS LEU LYS GLU GLY SEQRES 26 B 439 GLU HIS PHE GLY ILE SER LEU LYS ALA GLN LYS LYS ASP SEQRES 27 B 439 SER PRO TYR PHE GLU LEU ASP ILE PHE LEU ILE ASN GLY SEQRES 28 B 439 TYR GLN LEU ILE GLY ILE SER LEU THR THR SER SER THR SEQRES 29 B 439 ARG GLU LEU CYS LYS LEU LYS GLY PHE GLU VAL ILE HIS SEQRES 30 B 439 ARG VAL ARG GLN ILE GLY GLY ASP GLU SER LYS ALA ILE SEQRES 31 B 439 LEU ILE THR GLY MET ASP LYS SER LYS THR GLU ASP LEU SEQRES 32 B 439 GLN LYS ASP LEU ALA TYR GLU THR GLY SER THR GLN LYS SEQRES 33 B 439 ARG PHE VAL VAL PHE GLY ILE ASP ASP TRP ALA ASP ILE SEQRES 34 B 439 GLY SER LYS ILE CYS GLU GLU VAL PHE LYS SEQRES 1 X 4 A A A A HET MN A 501 1 HET MN B 501 1 HETNAM MN MANGANESE (II) ION FORMUL 4 MN 2(MN 2+) HELIX 1 AA1 PRO A 14 LYS A 25 1 12 HELIX 2 AA2 THR A 47 LEU A 58 1 12 HELIX 3 AA3 LEU A 60 ASP A 62 5 3 HELIX 4 AA4 ASN A 74 PHE A 86 1 13 HELIX 5 AA5 THR A 102 GLU A 115 1 14 HELIX 6 AA6 PHE A 117 LYS A 121 5 5 HELIX 7 AA7 ASP A 154 HIS A 162 1 9 HELIX 8 AA8 TYR A 175 PHE A 181 1 7 HELIX 9 AA9 SER A 184 ASP A 198 1 15 HELIX 10 AB1 LYS A 200 ASP A 210 1 11 HELIX 11 AB2 PRO A 211 LYS A 217 1 7 HELIX 12 AB3 LYS A 225 ASP A 239 1 15 HELIX 13 AB4 ASN A 240 SER A 242 5 3 HELIX 14 AB5 SER A 243 LYS A 251 1 9 HELIX 15 AB6 PRO A 253 ASN A 261 1 9 HELIX 16 AB7 ALA A 262 PHE A 263 5 2 HELIX 17 AB8 PRO A 264 LYS A 268 5 5 HELIX 18 AB9 THR A 283 VAL A 291 1 9 HELIX 19 AC1 VAL A 291 ASN A 299 1 9 HELIX 20 AC2 GLY A 300 ARG A 318 1 19 HELIX 21 AC3 THR A 362 GLY A 381 1 20 HELIX 22 AC4 ASP A 394 LEU A 405 1 12 HELIX 23 AC5 GLY A 420 ALA A 425 5 6 HELIX 24 AC6 ASP A 426 LYS A 437 1 12 HELIX 25 AC7 PRO B 14 LYS B 25 1 12 HELIX 26 AC8 ASN B 39 ASN B 43 5 5 HELIX 27 AC9 THR B 47 LEU B 58 1 12 HELIX 28 AD1 LEU B 60 ASP B 62 5 3 HELIX 29 AD2 ASN B 74 PHE B 86 1 13 HELIX 30 AD3 THR B 102 PHE B 117 1 16 HELIX 31 AD4 ASP B 154 HIS B 162 1 9 HELIX 32 AD5 PHE B 171 THR B 174 5 4 HELIX 33 AD6 TYR B 175 PHE B 181 1 7 HELIX 34 AD7 SER B 184 ASP B 198 1 15 HELIX 35 AD8 LYS B 200 ASP B 210 1 11 HELIX 36 AD9 PRO B 211 PHE B 216 1 6 HELIX 37 AE1 LYS B 225 LYS B 238 1 14 HELIX 38 AE2 SER B 243 GLU B 250 1 8 HELIX 39 AE3 PRO B 253 PHE B 263 1 11 HELIX 40 AE4 PRO B 264 LYS B 268 5 5 HELIX 41 AE5 LEU B 287 ASN B 299 1 13 HELIX 42 AE6 GLY B 300 ARG B 318 1 19 HELIX 43 AE7 THR B 362 GLY B 381 1 20 HELIX 44 AE8 ASP B 394 LEU B 405 1 12 HELIX 45 AE9 GLY B 420 TRP B 424 5 5 HELIX 46 AF1 ASP B 426 LYS B 437 1 12 SHEET 1 AA1 7 CYS A 64 LEU A 69 0 SHEET 2 AA1 7 LYS A 30 SER A 36 1 N PHE A 31 O ILE A 65 SHEET 3 AA1 7 LYS A 4 ILE A 9 1 N LEU A 8 O VAL A 32 SHEET 4 AA1 7 GLU A 93 ASN A 97 1 O HIS A 95 N VAL A 7 SHEET 5 AA1 7 LYS A 123 LEU A 129 1 O LYS A 123 N VAL A 94 SHEET 6 AA1 7 LYS A 135 TYR A 138 -1 O VAL A 137 N TYR A 128 SHEET 7 AA1 7 ALA A 144 SER A 146 -1 O ILE A 145 N LEU A 136 SHEET 1 AA2 6 GLU A 165 GLU A 170 0 SHEET 2 AA2 6 PHE A 326 GLN A 333 -1 O GLN A 333 N GLU A 165 SHEET 3 AA2 6 TYR A 339 ASN A 348 -1 O LEU A 342 N LEU A 330 SHEET 4 AA2 6 GLN A 351 LEU A 357 -1 O ILE A 353 N LEU A 346 SHEET 5 AA2 6 LYS A 386 ILE A 390 1 O ILE A 388 N GLY A 354 SHEET 6 AA2 6 PHE A 416 PHE A 419 1 O PHE A 419 N LEU A 389 SHEET 1 AA3 7 CYS B 64 LEU B 69 0 SHEET 2 AA3 7 LYS B 30 SER B 36 1 N PHE B 31 O ILE B 65 SHEET 3 AA3 7 VAL B 5 ILE B 9 1 N LEU B 8 O VAL B 32 SHEET 4 AA3 7 GLU B 93 ASN B 97 1 O HIS B 95 N VAL B 7 SHEET 5 AA3 7 LYS B 123 ASP B 130 1 O SER B 127 N LEU B 96 SHEET 6 AA3 7 LYS B 135 TYR B 138 -1 O LYS B 135 N ASP B 130 SHEET 7 AA3 7 SER B 141 SER B 146 -1 O ILE B 145 N LEU B 136 SHEET 1 AA4 6 GLU B 165 GLU B 170 0 SHEET 2 AA4 6 PHE B 326 GLN B 333 -1 O GLN B 333 N GLU B 165 SHEET 3 AA4 6 TYR B 339 ASN B 348 -1 O ASP B 343 N SER B 329 SHEET 4 AA4 6 GLN B 351 LEU B 357 -1 O ILE B 355 N ILE B 344 SHEET 5 AA4 6 LYS B 386 ILE B 390 1 O ILE B 388 N SER B 356 SHEET 6 AA4 6 PHE B 416 VAL B 417 1 O VAL B 417 N LEU B 389 LINK OD2 ASP A 343 MN MN A 501 1555 1555 2.37 LINK O LEU A 357 MN MN A 501 1555 1555 2.49 LINK OD2 ASP B 343 MN MN B 501 1555 1555 2.47 LINK O LEU B 357 MN MN B 501 1555 1555 2.45 CISPEP 1 ASP A 210 PRO A 211 0 10.94 CISPEP 2 ASP B 210 PRO B 211 0 5.54 CRYST1 57.966 79.133 94.214 90.00 95.58 90.00 P 1 21 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 0.017251 0.000000 0.001685 0.00000 SCALE2 0.000000 0.012637 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010665 0.00000