HEADER HYDROLASE/DNA 10-MAY-13 3WAZ TITLE CRYSTAL STRUCTURE OF A RESTRICTION ENZYME PABI IN COMPLEX WITH DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE UNCHARACTERIZED PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 8-226; COMPND 5 SYNONYM: RESTRICTION ENZYME PABI; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(*GP*CP*AP*TP*AP*GP*CP*TP*GP*TP*(ORP) COMPND 10 P*CP*AP*GP*CP*TP*AP*TP*GP*C)-3'); COMPND 11 CHAIN: C, D; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS ABYSSI; SOURCE 3 ORGANISM_TAXID: 272844; SOURCE 4 STRAIN: GE5; SOURCE 5 GENE: PYRAB01580, PAB0105; 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 RESTRICTION ENZYME, DNA BINDING, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.MIYAZONO,T.MIYAKAWA,T.ITO,M.TANOKURA REVDAT 3 08-NOV-23 3WAZ 1 REMARK REVDAT 2 25-DEC-19 3WAZ 1 SOURCE JRNL SEQADV LINK REVDAT 1 29-JAN-14 3WAZ 0 JRNL AUTH K.MIYAZONO,Y.FURUTA,M.WATANABE-MATSUI,T.MIYAKAWA,T.ITO, JRNL AUTH 2 I.KOBAYASHI,M.TANOKURA JRNL TITL A SEQUENCE-SPECIFIC DNA GLYCOSYLASE MEDIATES JRNL TITL 2 RESTRICTION-MODIFICATION IN PYROCOCCUS ABYSSI. JRNL REF NAT COMMUN V. 5 3178 2014 JRNL REFN ESSN 2041-1723 JRNL PMID 24458096 JRNL DOI 10.1038/NCOMMS4178 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.1_1168 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.94 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 30004 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 1524 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 19.9422 - 6.5979 1.00 2687 166 0.1650 0.1706 REMARK 3 2 6.5979 - 5.2688 1.00 2637 142 0.1629 0.1979 REMARK 3 3 5.2688 - 4.6122 1.00 2617 141 0.1347 0.1640 REMARK 3 4 4.6122 - 4.1948 1.00 2578 137 0.1242 0.1394 REMARK 3 5 4.1948 - 3.8965 1.00 2602 113 0.1501 0.1638 REMARK 3 6 3.8965 - 3.6683 1.00 2612 123 0.1661 0.1991 REMARK 3 7 3.6683 - 3.4856 1.00 2562 137 0.1846 0.2268 REMARK 3 8 3.4856 - 3.3346 0.99 2563 154 0.1966 0.2496 REMARK 3 9 3.3346 - 3.2067 0.99 2508 127 0.2206 0.2241 REMARK 3 10 3.2067 - 3.0965 1.00 2560 142 0.2592 0.3288 REMARK 3 11 3.0965 - 3.0000 1.00 2554 142 0.3033 0.3501 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) : 0.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.500 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 87.19 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 4515 REMARK 3 ANGLE : 0.674 6262 REMARK 3 CHIRALITY : 0.043 695 REMARK 3 PLANARITY : 0.002 659 REMARK 3 DIHEDRAL : 17.984 1756 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND (RESID 8:92 ) REMARK 3 ORIGIN FOR THE GROUP (A): 54.1336 54.2571 22.0201 REMARK 3 T TENSOR REMARK 3 T11: 0.6145 T22: 0.5902 REMARK 3 T33: 0.3427 T12: -0.0226 REMARK 3 T13: -0.1034 T23: 0.0338 REMARK 3 L TENSOR REMARK 3 L11: 5.7954 L22: 8.9273 REMARK 3 L33: 1.2948 L12: -3.1051 REMARK 3 L13: 0.4078 L23: 0.4701 REMARK 3 S TENSOR REMARK 3 S11: -0.0076 S12: -0.4557 S13: -0.0577 REMARK 3 S21: 0.7553 S22: 0.1858 S23: -0.3088 REMARK 3 S31: 0.0108 S32: 0.2516 S33: -0.1578 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND (RESID 93:223 ) REMARK 3 ORIGIN FOR THE GROUP (A): 44.9204 51.6386 13.6632 REMARK 3 T TENSOR REMARK 3 T11: 0.4546 T22: 0.5643 REMARK 3 T33: 0.3121 T12: 0.0205 REMARK 3 T13: 0.0166 T23: 0.0697 REMARK 3 L TENSOR REMARK 3 L11: 1.5543 L22: 4.5011 REMARK 3 L33: 1.7139 L12: 0.1823 REMARK 3 L13: 0.0842 L23: 1.0530 REMARK 3 S TENSOR REMARK 3 S11: -0.0104 S12: 0.1012 S13: 0.1621 REMARK 3 S21: 0.1922 S22: -0.0070 S23: 0.1539 REMARK 3 S31: -0.0309 S32: -0.0447 S33: 0.0547 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN C AND (RESID 1:5 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.3199 42.9620 38.1385 REMARK 3 T TENSOR REMARK 3 T11: 1.2000 T22: 1.4783 REMARK 3 T33: 1.0468 T12: 0.2344 REMARK 3 T13: 0.4772 T23: 0.1873 REMARK 3 L TENSOR REMARK 3 L11: 4.3815 L22: 6.8444 REMARK 3 L33: 4.0095 L12: 3.1795 REMARK 3 L13: -2.4397 L23: -2.6450 REMARK 3 S TENSOR REMARK 3 S11: 0.1906 S12: 0.6530 S13: 2.0133 REMARK 3 S21: 0.2011 S22: 0.9134 S23: 0.7178 REMARK 3 S31: -0.3619 S32: -1.3497 S33: -1.2760 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN C AND (RESID 6:20 ) REMARK 3 ORIGIN FOR THE GROUP (A): 50.6283 34.2271 33.6316 REMARK 3 T TENSOR REMARK 3 T11: 0.8957 T22: 0.7720 REMARK 3 T33: 0.5784 T12: 0.0675 REMARK 3 T13: -0.0774 T23: 0.0980 REMARK 3 L TENSOR REMARK 3 L11: 3.3513 L22: 1.5723 REMARK 3 L33: 3.1923 L12: 0.7244 REMARK 3 L13: 1.9200 L23: -0.0881 REMARK 3 S TENSOR REMARK 3 S11: -0.0316 S12: -1.1683 S13: -0.3823 REMARK 3 S21: 1.1628 S22: 0.0531 S23: -0.1453 REMARK 3 S31: 0.0811 S32: -0.1064 S33: -0.0538 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN B AND (RESID 8:92 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.8434 19.9369 20.2903 REMARK 3 T TENSOR REMARK 3 T11: 0.6844 T22: 0.6937 REMARK 3 T33: 0.7497 T12: -0.1596 REMARK 3 T13: 0.1980 T23: 0.0395 REMARK 3 L TENSOR REMARK 3 L11: 7.2081 L22: 8.5016 REMARK 3 L33: 2.0760 L12: -5.7062 REMARK 3 L13: 0.4142 L23: 0.0901 REMARK 3 S TENSOR REMARK 3 S11: -0.0837 S12: -0.1629 S13: -0.6552 REMARK 3 S21: 0.3113 S22: 0.2086 S23: 1.1535 REMARK 3 S31: 0.5397 S32: -0.5430 S33: -0.1435 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN B AND (RESID 93:224 ) REMARK 3 ORIGIN FOR THE GROUP (A): 41.5421 22.7002 12.9841 REMARK 3 T TENSOR REMARK 3 T11: 0.4446 T22: 0.5431 REMARK 3 T33: 0.4350 T12: -0.0162 REMARK 3 T13: 0.0197 T23: 0.0124 REMARK 3 L TENSOR REMARK 3 L11: 1.1894 L22: 5.5136 REMARK 3 L33: 2.1099 L12: -0.7343 REMARK 3 L13: 0.2511 L23: -0.4281 REMARK 3 S TENSOR REMARK 3 S11: -0.0489 S12: 0.0924 S13: -0.2894 REMARK 3 S21: 0.1681 S22: -0.0341 S23: 0.5114 REMARK 3 S31: 0.3092 S32: -0.2049 S33: 0.1135 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN D AND (RESID 1:10 ) REMARK 3 ORIGIN FOR THE GROUP (A): 56.0524 36.0589 35.3513 REMARK 3 T TENSOR REMARK 3 T11: 0.9777 T22: 1.1903 REMARK 3 T33: 0.5210 T12: 0.2222 REMARK 3 T13: -0.1324 T23: 0.0367 REMARK 3 L TENSOR REMARK 3 L11: 9.7043 L22: 8.5270 REMARK 3 L33: 2.2893 L12: -2.5060 REMARK 3 L13: 6.6830 L23: -6.3766 REMARK 3 S TENSOR REMARK 3 S11: 0.7545 S12: -1.1176 S13: -1.7586 REMARK 3 S21: 0.7319 S22: 0.5238 S23: 0.3729 REMARK 3 S31: -0.2460 S32: 0.3718 S33: -1.2303 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN D AND (RESID 12:20 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.6501 38.4708 34.7061 REMARK 3 T TENSOR REMARK 3 T11: 0.8818 T22: 1.0391 REMARK 3 T33: 0.8147 T12: 0.1340 REMARK 3 T13: 0.3165 T23: 0.1621 REMARK 3 L TENSOR REMARK 3 L11: 4.9581 L22: 2.6125 REMARK 3 L33: 8.0908 L12: -2.9602 REMARK 3 L13: -5.9200 L23: 4.3296 REMARK 3 S TENSOR REMARK 3 S11: -0.6187 S12: -0.7633 S13: -0.2050 REMARK 3 S21: 1.1860 S22: 0.2077 S23: 0.6447 REMARK 3 S31: 1.1267 S32: -0.4135 S33: 0.4211 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN A AND (RESID 301:301 )) OR (CHAIN B AND REMARK 3 (RESID 301:301)) REMARK 3 ORIGIN FOR THE GROUP (A): 42.9962 37.0393 20.3341 REMARK 3 T TENSOR REMARK 3 T11: 1.6406 T22: 0.9549 REMARK 3 T33: 0.6860 T12: 0.2423 REMARK 3 T13: 0.3426 T23: 0.0977 REMARK 3 L TENSOR REMARK 3 L11: -0.0066 L22: -0.0006 REMARK 3 L33: 0.0026 L12: -0.0024 REMARK 3 L13: -0.0094 L23: -0.0020 REMARK 3 S TENSOR REMARK 3 S11: 0.3191 S12: 0.7719 S13: 0.1160 REMARK 3 S21: -0.8721 S22: -0.2729 S23: -0.1680 REMARK 3 S31: -0.2060 S32: -0.4561 S33: -0.2000 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 3WAZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-MAY-13. REMARK 100 THE DEPOSITION ID IS D_1000096108. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-12 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NE3A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.20 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30063 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 117.843 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08800 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.50 REMARK 200 R MERGE FOR SHELL (I) : 0.62300 REMARK 200 R SYM FOR SHELL (I) : 0.62300 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 2DVY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 79.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.1M SODIUM MALONATE, PH 7.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 52.25400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 75.70100 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 93.84850 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 52.25400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 75.70100 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 93.84850 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 52.25400 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 75.70100 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 93.84850 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 52.25400 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 75.70100 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 93.84850 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 A 7 REMARK 465 GLY A 224 REMARK 465 THR A 225 REMARK 465 SER A 226 REMARK 465 MET B 7 REMARK 465 THR B 225 REMARK 465 SER B 226 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 DT C 4 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DC C 7 O4' - C4' - C3' ANGL. DEV. = -3.5 DEGREES REMARK 500 DC C 7 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DT C 10 C3' - O3' - P ANGL. DEV. = -7.8 DEGREES REMARK 500 DC C 20 O4' - C1' - N1 ANGL. DEV. = 2.2 DEGREES REMARK 500 DT D 4 C3' - C2' - C1' ANGL. DEV. = -4.8 DEGREES REMARK 500 DT D 4 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DC D 7 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC D 20 O4' - C1' - N1 ANGL. DEV. = 2.1 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 A 54 -159.22 -76.98 REMARK 500 TYR A 68 -10.99 -149.15 REMARK 500 GLU A 77 -107.72 53.82 REMARK 500 GLU B 37 111.08 -165.93 REMARK 500 TYR B 68 -9.49 -147.39 REMARK 500 GLU B 77 -105.43 54.59 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADE A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADE B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2DVY RELATED DB: PDB DBREF 3WAZ A 8 226 UNP Q9V2B6 Q9V2B6_PYRAB 8 226 DBREF 3WAZ B 8 226 UNP Q9V2B6 Q9V2B6_PYRAB 8 226 DBREF 3WAZ C 1 20 PDB 3WAZ 3WAZ 1 20 DBREF 3WAZ D 1 20 PDB 3WAZ 3WAZ 1 20 SEQADV 3WAZ MET A 7 UNP Q9V2B6 EXPRESSION TAG SEQADV 3WAZ ALA A 154 UNP Q9V2B6 LYS 154 ENGINEERED MUTATION SEQADV 3WAZ MET B 7 UNP Q9V2B6 EXPRESSION TAG SEQADV 3WAZ ALA B 154 UNP Q9V2B6 LYS 154 ENGINEERED MUTATION SEQRES 1 A 220 MET GLU ALA SER VAL SER PHE GLU ASN GLY LYS ILE VAL SEQRES 2 A 220 VAL ARG LEU PRO ILE THR ARG PRO THR SER LYS ILE ARG SEQRES 3 A 220 VAL LYS LYS ILE GLU ASN GLY VAL GLY ILE PRO VAL SER SEQRES 4 A 220 THR ARG LYS LYS SER PHE PRO SER ASP GLU ASN LEU ARG SEQRES 5 A 220 ASP TYR TYR ILE GLU TRP GLN ILE SER TYR ALA ARG ASP SEQRES 6 A 220 GLY LYS TYR ASP TYR GLU LEU SER ARG MET VAL ARG LEU SEQRES 7 A 220 ALA HIS GLU HIS GLY ILE LEU THR TYR ASN ASP ILE TYR SEQRES 8 A 220 GLU LEU LEU LYS PHE ALA ASP ASP VAL LYS SER TYR LEU SEQRES 9 A 220 GLU ASP LYS GLY ILE ARG ARG GLU SER THR ASN GLU GLU SEQRES 10 A 220 LEU TYR GLY PHE ASN ILE TYR GLU ASP VAL TYR PRO VAL SEQRES 11 A 220 ALA LYS LYS GLU LEU PRO SER GLY GLU PHE ILE GLY ILE SEQRES 12 A 220 VAL LEU LYS HIS ALA GLN ARG ALA VAL GLY TYR GLN SER SEQRES 13 A 220 MET VAL TYR VAL CYS ILE PRO LEU THR ASN VAL GLU PRO SEQRES 14 A 220 SER LEU ALA GLY ARG VAL ALA ARG ARG ASN GLU VAL VAL SEQRES 15 A 220 LYS TYR GLU VAL PRO VAL ASP LEU MET LYS GLU LEU LEU SEQRES 16 A 220 LYS ALA PHE ILE ILE ALA SER GLU THR HIS LYS ASN ASP SEQRES 17 A 220 ILE VAL LYS PHE LEU ARG SER ILE ILE GLY THR SER SEQRES 1 B 220 MET GLU ALA SER VAL SER PHE GLU ASN GLY LYS ILE VAL SEQRES 2 B 220 VAL ARG LEU PRO ILE THR ARG PRO THR SER LYS ILE ARG SEQRES 3 B 220 VAL LYS LYS ILE GLU ASN GLY VAL GLY ILE PRO VAL SER SEQRES 4 B 220 THR ARG LYS LYS SER PHE PRO SER ASP GLU ASN LEU ARG SEQRES 5 B 220 ASP TYR TYR ILE GLU TRP GLN ILE SER TYR ALA ARG ASP SEQRES 6 B 220 GLY LYS TYR ASP TYR GLU LEU SER ARG MET VAL ARG LEU SEQRES 7 B 220 ALA HIS GLU HIS GLY ILE LEU THR TYR ASN ASP ILE TYR SEQRES 8 B 220 GLU LEU LEU LYS PHE ALA ASP ASP VAL LYS SER TYR LEU SEQRES 9 B 220 GLU ASP LYS GLY ILE ARG ARG GLU SER THR ASN GLU GLU SEQRES 10 B 220 LEU TYR GLY PHE ASN ILE TYR GLU ASP VAL TYR PRO VAL SEQRES 11 B 220 ALA LYS LYS GLU LEU PRO SER GLY GLU PHE ILE GLY ILE SEQRES 12 B 220 VAL LEU LYS HIS ALA GLN ARG ALA VAL GLY TYR GLN SER SEQRES 13 B 220 MET VAL TYR VAL CYS ILE PRO LEU THR ASN VAL GLU PRO SEQRES 14 B 220 SER LEU ALA GLY ARG VAL ALA ARG ARG ASN GLU VAL VAL SEQRES 15 B 220 LYS TYR GLU VAL PRO VAL ASP LEU MET LYS GLU LEU LEU SEQRES 16 B 220 LYS ALA PHE ILE ILE ALA SER GLU THR HIS LYS ASN ASP SEQRES 17 B 220 ILE VAL LYS PHE LEU ARG SER ILE ILE GLY THR SER SEQRES 1 C 20 DG DC DA DT DA DG DC DT DG DT ORP DC DA SEQRES 2 C 20 DG DC DT DA DT DG DC SEQRES 1 D 20 DG DC DA DT DA DG DC DT DG DT ORP DC DA SEQRES 2 D 20 DG DC DT DA DT DG DC HET ORP C 11 12 HET ORP D 11 12 HET ADE A 301 10 HET ADE B 301 10 HETNAM ORP 2-DEOXY-5-PHOSPHONO-RIBOSE HETNAM ADE ADENINE FORMUL 3 ORP 2(C5 H11 O7 P) FORMUL 5 ADE 2(C5 H5 N5) HELIX 1 1 ASP A 54 ARG A 58 5 5 HELIX 2 2 GLU A 77 HIS A 88 1 12 HELIX 3 3 THR A 92 ASP A 105 1 14 HELIX 4 4 TYR A 109 LYS A 113 5 5 HELIX 5 5 PRO A 193 ILE A 206 1 14 HELIX 6 6 SER A 208 SER A 221 1 14 HELIX 7 7 ASP B 54 ARG B 58 5 5 HELIX 8 8 GLU B 77 HIS B 88 1 12 HELIX 9 9 THR B 92 ASP B 105 1 14 HELIX 10 10 TYR B 109 LYS B 113 5 5 HELIX 11 11 THR B 171 VAL B 173 5 3 HELIX 12 12 PRO B 193 SER B 208 1 16 HELIX 13 13 SER B 208 GLY B 224 1 17 SHEET 1 A 3 SER A 10 GLU A 14 0 SHEET 2 A 3 LYS A 17 PRO A 23 -1 O VAL A 19 N SER A 12 SHEET 3 A 3 VAL A 187 VAL A 192 -1 O VAL A 192 N ILE A 18 SHEET 1 B12 VAL A 40 PRO A 43 0 SHEET 2 B12 ILE A 31 GLU A 37 -1 N LYS A 35 O ILE A 42 SHEET 3 B12 TYR A 60 TRP A 64 -1 O GLU A 63 N ARG A 32 SHEET 4 B12 TYR A 160 PRO A 169 -1 O VAL A 166 N TRP A 64 SHEET 5 B12 PHE A 146 HIS A 153 -1 N VAL A 150 O MET A 163 SHEET 6 B12 PHE A 127 GLU A 140 -1 N ALA A 137 O ILE A 149 SHEET 7 B12 PHE B 127 GLU B 140 -1 O TYR B 130 N VAL A 136 SHEET 8 B12 PHE B 146 HIS B 153 -1 O ILE B 149 N ALA B 137 SHEET 9 B12 TYR B 160 PRO B 169 -1 O MET B 163 N VAL B 150 SHEET 10 B12 TYR B 60 TRP B 64 -1 N TRP B 64 O VAL B 166 SHEET 11 B12 ILE B 31 GLU B 37 -1 N ARG B 32 O GLU B 63 SHEET 12 B12 VAL B 40 PRO B 43 -1 O ILE B 42 N LYS B 35 SHEET 1 C 4 ARG A 116 LEU A 124 0 SHEET 2 C 4 PHE A 127 GLU A 140 -1 O VAL A 133 N ARG A 116 SHEET 3 C 4 PHE B 127 GLU B 140 -1 O TYR B 130 N VAL A 136 SHEET 4 C 4 ARG B 116 LEU B 124 -1 N ARG B 116 O VAL B 133 SHEET 1 D 3 SER B 10 GLU B 14 0 SHEET 2 D 3 LYS B 17 PRO B 23 -1 O VAL B 19 N SER B 12 SHEET 3 D 3 VAL B 187 VAL B 192 -1 O VAL B 192 N ILE B 18 LINK O3' DT C 10 P ORP C 11 1555 1555 1.60 LINK O3 ORP C 11 P DC C 12 1555 1555 1.59 LINK O3' DT D 10 P ORP D 11 1555 1555 1.60 LINK O3 ORP D 11 P DC D 12 1555 1555 1.60 CISPEP 1 GLU A 174 PRO A 175 0 5.70 CISPEP 2 GLU B 174 PRO B 175 0 1.58 SITE 1 AC1 10 GLN A 65 ILE A 66 TYR A 68 SER A 162 SITE 2 AC1 10 MET A 163 VAL A 164 PHE A 204 HIS A 211 SITE 3 AC1 10 DT D 10 ORP D 11 SITE 1 AC2 9 GLN B 65 ILE B 66 TYR B 68 SER B 162 SITE 2 AC2 9 MET B 163 VAL B 164 PHE B 204 HIS B 211 SITE 3 AC2 9 DT C 10 CRYST1 104.508 151.402 187.697 90.00 90.00 90.00 I 2 2 2 16 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 0.009569 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006605 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005328 0.00000