HEADER HYDROLASE 13-JAN-20 6TWW TITLE VARIANT W229D/F290W-19 OF THE LAST COMMON ANCESTOR OF GRAM-NEGATIVE TITLE 2 BACTERIA BETA-LACTAMASE CLASS A (GNCA4) COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-LACTAMASE (GNCA4); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 3 ORGANISM_TAXID: 32630; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_PLASMID: PET-24B(+) KEYWDS HYDROLASE, ANTIBIOTIC RESISTANCE, ANCESTRAL RECONSTRUCTED EXPDTA X-RAY DIFFRACTION AUTHOR J.A.GAVIRA,V.RISSO,J.M.SANCHEZ-RUIZ,A.ROMERO-RIVERA,S.C.L.KAMERLIN REVDAT 3 24-JAN-24 6TWW 1 REMARK REVDAT 2 16-SEP-20 6TWW 1 JRNL LINK REVDAT 1 03-JUN-20 6TWW 0 JRNL AUTH V.A.RISSO,A.ROMERO-RIVERA,L.I.GUTIERREZ-RUS,M.ORTEGA-MUNOZ, JRNL AUTH 2 F.SANTOYO-GONZALEZ,J.A.GAVIRA,J.M.SANCHEZ-RUIZ, JRNL AUTH 3 S.C.L.KAMERLIN JRNL TITL ENHANCING ADE NOVOENZYME ACTIVITY BY COMPUTATIONALLY-FOCUSED JRNL TITL 2 ULTRA-LOW-THROUGHPUT SCREENING. JRNL REF CHEM SCI V. 11 6134 2020 JRNL REFN ISSN 2041-6520 JRNL PMID 32832059 JRNL DOI 10.1039/D0SC01935F REMARK 2 REMARK 2 RESOLUTION. 1.38 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.15.2_3472 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.38 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.31 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 74324 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.151 REMARK 3 FREE R VALUE : 0.166 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.690 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 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 47.3100 - 3.3300 1.00 5612 155 0.1470 0.1367 REMARK 3 2 3.3300 - 2.6400 1.00 5303 147 0.1581 0.1800 REMARK 3 3 2.6400 - 2.3100 1.00 5222 144 0.1539 0.1866 REMARK 3 4 2.3100 - 2.1000 1.00 5196 144 0.1395 0.1746 REMARK 3 5 2.1000 - 1.9500 1.00 5150 142 0.1412 0.1713 REMARK 3 6 1.9500 - 1.8300 1.00 5127 143 0.1480 0.1666 REMARK 3 7 1.8300 - 1.7400 1.00 5102 140 0.1470 0.1620 REMARK 3 8 1.7400 - 1.6600 1.00 5118 142 0.1474 0.1640 REMARK 3 9 1.6600 - 1.6000 1.00 5089 141 0.1403 0.1483 REMARK 3 10 1.6000 - 1.5500 1.00 5103 141 0.1488 0.1573 REMARK 3 11 1.5500 - 1.5000 1.00 5094 140 0.1528 0.1968 REMARK 3 12 1.5000 - 1.4500 1.00 5060 140 0.1636 0.1782 REMARK 3 13 1.4500 - 1.4200 1.00 5064 141 0.1780 0.2062 REMARK 3 14 1.4200 - 1.3800 1.00 5084 140 0.2079 0.2143 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.114 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.124 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.91 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.22 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 : 0.013 2295 REMARK 3 ANGLE : 1.274 3145 REMARK 3 CHIRALITY : 0.096 356 REMARK 3 PLANARITY : 0.009 427 REMARK 3 DIHEDRAL : 9.703 1251 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 28 THROUGH 85 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.6275 17.8265 -13.0876 REMARK 3 T TENSOR REMARK 3 T11: 0.1271 T22: 0.1393 REMARK 3 T33: 0.1147 T12: 0.0051 REMARK 3 T13: -0.0061 T23: -0.0047 REMARK 3 L TENSOR REMARK 3 L11: 0.8456 L22: 0.6521 REMARK 3 L33: 0.3096 L12: -0.2832 REMARK 3 L13: 0.0401 L23: -0.0699 REMARK 3 S TENSOR REMARK 3 S11: -0.0245 S12: -0.0028 S13: -0.0050 REMARK 3 S21: 0.0214 S22: 0.0389 S23: -0.0820 REMARK 3 S31: -0.0046 S32: 0.0796 S33: -0.0097 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 86 THROUGH 98 ) REMARK 3 ORIGIN FOR THE GROUP (A): -39.7130 -0.0398 -22.7909 REMARK 3 T TENSOR REMARK 3 T11: 0.1641 T22: 0.1849 REMARK 3 T33: 0.2284 T12: -0.0167 REMARK 3 T13: -0.0159 T23: -0.0389 REMARK 3 L TENSOR REMARK 3 L11: 1.9372 L22: 4.7850 REMARK 3 L33: 2.6884 L12: -1.7810 REMARK 3 L13: 1.3547 L23: -2.2926 REMARK 3 S TENSOR REMARK 3 S11: -0.0094 S12: 0.0615 S13: -0.2027 REMARK 3 S21: -0.2163 S22: 0.0324 S23: 0.3399 REMARK 3 S31: 0.0319 S32: -0.1005 S33: -0.0008 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 99 THROUGH 118 ) REMARK 3 ORIGIN FOR THE GROUP (A): -31.6393 -7.5881 -12.1393 REMARK 3 T TENSOR REMARK 3 T11: 0.1986 T22: 0.1570 REMARK 3 T33: 0.2184 T12: -0.0078 REMARK 3 T13: 0.0097 T23: 0.0154 REMARK 3 L TENSOR REMARK 3 L11: 3.1525 L22: 3.4183 REMARK 3 L33: 2.3778 L12: -1.4708 REMARK 3 L13: 0.0889 L23: 0.0094 REMARK 3 S TENSOR REMARK 3 S11: -0.0646 S12: -0.1492 S13: -0.3566 REMARK 3 S21: 0.2469 S22: 0.0097 S23: 0.1739 REMARK 3 S31: 0.1784 S32: 0.0644 S33: 0.0746 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 119 THROUGH 258 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.9283 11.0200 -15.2476 REMARK 3 T TENSOR REMARK 3 T11: 0.1341 T22: 0.1255 REMARK 3 T33: 0.1342 T12: 0.0075 REMARK 3 T13: -0.0081 T23: -0.0011 REMARK 3 L TENSOR REMARK 3 L11: 0.5470 L22: 0.9178 REMARK 3 L33: 0.7331 L12: 0.1365 REMARK 3 L13: 0.0344 L23: 0.3515 REMARK 3 S TENSOR REMARK 3 S11: -0.0046 S12: -0.0033 S13: -0.0497 REMARK 3 S21: 0.0339 S22: -0.0004 S23: 0.0303 REMARK 3 S31: 0.0120 S32: 0.0037 S33: -0.0004 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 259 THROUGH 296 ) REMARK 3 ORIGIN FOR THE GROUP (A): -15.1320 18.6770 -3.0732 REMARK 3 T TENSOR REMARK 3 T11: 0.1333 T22: 0.1710 REMARK 3 T33: 0.1160 T12: -0.0146 REMARK 3 T13: -0.0229 T23: -0.0031 REMARK 3 L TENSOR REMARK 3 L11: 2.2974 L22: 1.6139 REMARK 3 L33: 2.6112 L12: -0.0824 REMARK 3 L13: 0.1762 L23: -0.1172 REMARK 3 S TENSOR REMARK 3 S11: -0.0360 S12: -0.1800 S13: 0.0538 REMARK 3 S21: 0.2482 S22: 0.0328 S23: -0.0464 REMARK 3 S31: -0.0270 S32: 0.0889 S33: -0.0173 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 6TWW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1292106165. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-JUN-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97926 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 74330 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.380 REMARK 200 RESOLUTION RANGE LOW (A) : 47.310 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 15.30 REMARK 200 R MERGE (I) : 0.04980 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 27.2400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.38 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.43 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.60 REMARK 200 R MERGE FOR SHELL (I) : 0.67670 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.430 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4UHU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 4.0 M SODIUM FORMATE, 100 MM TRIS HCL REMARK 280 PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 132.21467 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 66.10733 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 99.16100 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 33.05367 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 165.26833 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 132.21467 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 66.10733 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 33.05367 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 99.16100 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 165.26833 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1610 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1799 LIES ON A SPECIAL POSITION. 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 ALA A 26 REMARK 465 ALA A 27 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 HOH A 1564 O HOH A 1736 1.94 REMARK 500 O HOH A 1715 O HOH A 1752 1.95 REMARK 500 O HOH A 1700 O HOH A 1819 1.99 REMARK 500 O HOH A 1755 O HOH A 1770 2.10 REMARK 500 OE1 GLU A 281 O HOH A 1501 2.11 REMARK 500 O HOH A 1656 O HOH A 1845 2.15 REMARK 500 O HOH A 1661 O HOH A 1756 2.16 REMARK 500 O HOH A 1670 O HOH A 1712 2.18 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 HOH A 1724 O HOH A 1729 12564 1.79 REMARK 500 O HOH A 1545 O HOH A 1581 12564 2.03 REMARK 500 O HOH A 1545 O HOH A 1545 12564 2.16 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 A 65 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 65 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ASP A 229 CB - CG - OD2 ANGL. DEV. = -6.7 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 CYS A 69 -138.22 46.64 REMARK 500 TYR A 105 62.31 61.46 REMARK 500 TYR A 105 62.31 68.55 REMARK 500 ARG A 220 -128.53 -110.11 REMARK 500 ARG A 220 -128.53 -109.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1410 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 97 O REMARK 620 2 VAL A 113 O 90.2 REMARK 620 3 HOH A1733 O 167.9 81.6 REMARK 620 4 HOH A1762 O 86.0 162.8 99.2 REMARK 620 5 HOH A1824 O 106.4 110.9 84.9 86.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1409 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1523 O REMARK 620 2 HOH A1732 O 94.7 REMARK 620 3 HOH A1748 O 169.5 83.2 REMARK 620 4 HOH A1755 O 81.0 76.8 88.5 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 1402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMT A 1408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 1409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 1410 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5FQK RELATED DB: PDB REMARK 900 RELATED ID: 5FQI RELATED DB: PDB DBREF 6TWW A 26 296 PDB 6TWW 6TWW 26 296 SEQRES 1 A 268 ALA ALA ALA LEU SER GLU GLN LEU ALA GLU LEU GLU LYS SEQRES 2 A 268 ARG SER GLY GLY ARG LEU GLY VAL ALA VAL LEU ASP THR SEQRES 3 A 268 ALA THR GLY ARG ARG PHE GLY TYR ARG GLY ASP GLU ARG SEQRES 4 A 268 PHE PRO MET CYS SER THR PHE LYS ALA LEU LEU ALA ALA SEQRES 5 A 268 ALA VAL LEU ALA ARG VAL ASP GLN GLY LYS GLU ASN LEU SEQRES 6 A 268 ASP ARG ARG ILE THR TYR GLY LYS GLU ASP LEU VAL ASP SEQRES 7 A 268 TYR SER PRO VAL THR GLU LYS HIS VAL GLY ASP GLY MET SEQRES 8 A 268 THR VAL ALA GLU LEU CYS GLU ALA ALA ILE THR TYR SER SEQRES 9 A 268 ASP ASN THR ALA ALA ASN LEU LEU LEU GLU ALA LEU GLY SEQRES 10 A 268 GLY PRO ALA ALA LEU THR ALA PHE LEU ARG SER ILE GLY SEQRES 11 A 268 ASP ASN VAL THR ARG LEU ASP ARG TRP GLU PRO GLU LEU SEQRES 12 A 268 ASN THR ALA ALA PRO GLY ASP PRO ARG ASP THR THR THR SEQRES 13 A 268 PRO ALA ALA MET ALA ALA THR LEU ARG THR LEU LEU LEU SEQRES 14 A 268 GLY ASP VAL LEU SER PRO ALA SER ARG GLN GLN LEU VAL SEQRES 15 A 268 ASP TRP LEU ILE ALA ASN LYS THR GLY ASP LYS ARG LEU SEQRES 16 A 268 ARG ALA GLY LEU PRO ALA ASP ASP ARG VAL GLY ASP LYS SEQRES 17 A 268 THR GLY THR GLY GLU HIS GLY THR THR ASN ASP ILE ALA SEQRES 18 A 268 VAL VAL TRP PRO PRO ASN HIS ALA PRO ILE PHE ILE ALA SEQRES 19 A 268 VAL TYR LEU THR GLU SER GLN VAL ASP ALA ASP ALA ARG SEQRES 20 A 268 ASP ALA VAL ILE ALA GLU VAL ALA ARG LEU ILE VAL ALA SEQRES 21 A 268 ALA TRP HIS HIS HIS HIS HIS HIS HET FMT A1401 3 HET ACT A1402 4 HET FMT A1403 3 HET GOL A1404 12 HET FMT A1405 3 HET FMT A1406 3 HET FMT A1407 3 HET FMT A1408 3 HET MG A1409 1 HET NA A1410 1 HETNAM FMT FORMIC ACID HETNAM ACT ACETATE ION HETNAM GOL GLYCEROL HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 FMT 6(C H2 O2) FORMUL 3 ACT C2 H3 O2 1- FORMUL 5 GOL C3 H8 O3 FORMUL 10 MG MG 2+ FORMUL 11 NA NA 1+ FORMUL 12 HOH *366(H2 O) HELIX 1 AA1 ALA A 28 GLY A 41 1 14 HELIX 2 AA2 THR A 71 GLN A 86 1 16 HELIX 3 AA3 GLY A 98 LEU A 102 5 5 HELIX 4 AA4 VAL A 108 HIS A 112 5 5 HELIX 5 AA5 VAL A 119 TYR A 129 1 11 HELIX 6 AA6 ASP A 131 GLY A 143 1 13 HELIX 7 AA7 GLY A 144 ILE A 155 1 12 HELIX 8 AA8 PRO A 167 THR A 171 5 5 HELIX 9 AA9 THR A 182 GLY A 196 1 15 HELIX 10 AB1 SER A 200 ALA A 213 1 14 HELIX 11 AB2 ARG A 220 LEU A 225 1 6 HELIX 12 AB3 ASP A 271 TRP A 290 1 20 SHEET 1 AA1 5 ARG A 56 TYR A 60 0 SHEET 2 AA1 5 ARG A 43 ASP A 50 -1 N VAL A 46 O TYR A 60 SHEET 3 AA1 5 ILE A 259 THR A 266 -1 O TYR A 264 N GLY A 45 SHEET 4 AA1 5 THR A 243 TRP A 251 -1 N ALA A 248 O ILE A 261 SHEET 5 AA1 5 ARG A 230 GLY A 238 -1 N GLY A 236 O ASN A 245 SHEET 1 AA2 2 PHE A 66 PRO A 67 0 SHEET 2 AA2 2 THR A 180 THR A 181 -1 O THR A 181 N PHE A 66 SHEET 1 AA3 2 ARG A 94 ILE A 95 0 SHEET 2 AA3 2 MET A 117 THR A 118 -1 O MET A 117 N ILE A 95 LINK O TYR A 97 NA NA A1410 1555 1555 2.35 LINK O VAL A 113 NA NA A1410 1555 1555 2.55 LINK MG MG A1409 O HOH A1523 1555 1555 1.93 LINK MG MG A1409 O HOH A1732 1555 1555 2.09 LINK MG MG A1409 O HOH A1748 1555 1555 2.16 LINK MG MG A1409 O HOH A1755 1555 1555 2.27 LINK NA NA A1410 O HOH A1733 1555 1555 2.33 LINK NA NA A1410 O HOH A1762 1555 1555 2.37 LINK NA NA A1410 O HOH A1824 1555 1555 2.74 CISPEP 1 GLU A 166 PRO A 167 0 5.52 SITE 1 AC1 1 ARG A 275 SITE 1 AC2 3 PRO A 226 ASP A 229 HIS A 293 SITE 1 AC3 3 LYS A 111 HOH A1504 HOH A1734 SITE 1 AC4 11 SER A 70 LYS A 73 TYR A 105 SER A 130 SITE 2 AC4 11 ASN A 132 ASN A 170 THR A 237 HOH A1510 SITE 3 AC4 11 HOH A1514 HOH A1576 HOH A1689 SITE 1 AC5 5 GLY A 41 GLY A 42 GLU A 267 HOH A1509 SITE 2 AC5 5 HOH A1529 SITE 1 AC6 4 ASP A 176 PRO A 177 HOH A1547 HOH A1693 SITE 1 AC7 6 GLU A 35 LYS A 38 ARG A 153 HOH A1508 SITE 2 AC7 6 HOH A1512 HOH A1577 SITE 1 AC8 6 ARG A 94 HIS A 112 ASP A 115 GLY A 116 SITE 2 AC8 6 GLU A 121 HOH A1558 SITE 1 AC9 6 HIS A 256 HIS A 293 HOH A1523 HOH A1732 SITE 2 AC9 6 HOH A1748 HOH A1755 SITE 1 AD1 6 THR A 96 TYR A 97 VAL A 113 HOH A1733 SITE 2 AD1 6 HOH A1762 HOH A1824 CRYST1 78.230 78.230 198.322 90.00 90.00 120.00 P 65 2 2 12 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 0.012783 0.007380 0.000000 0.00000 SCALE2 0.000000 0.014760 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005042 0.00000