HEADER OXIDOREDUCTASE 24-FEB-11 2YAR TITLE X-RAY INDUCED REDUCTION OF LACCASE FROM THERMUS THERMOPHILUS HB27 TITLE 2 (87.5-100.0 PERCENT DOSE) COMPND MOL_ID: 1; COMPND 2 MOLECULE: LACCASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MATURE FORM, RESIDUES 24-462; COMPND 5 EC: 1.10.3.2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 262724; SOURCE 4 STRAIN: HB27; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET32A KEYWDS OXIDOREDUCTASE, MULTICOPPER OXIDASES EXPDTA X-RAY DIFFRACTION AUTHOR H.SERRANO-POSADA,E.RUDINO-PINERA REVDAT 3 16-DEC-15 2YAR 1 JRNL REVDAT 2 09-DEC-15 2YAR 1 JRNL REVDAT 1 29-FEB-12 2YAR 0 JRNL AUTH H.SERRANO-POSADA,S.CENTENO-LEIJA,S.P.ROJAS-TREJO, JRNL AUTH 2 C.RODRIGUEZ-ALMAZAN,V.STOJANOFF,E.RUDINO-PINERA JRNL TITL X-RAY-INDUCED CATALYTIC ACTIVE-SITE REDUCTION OF A JRNL TITL 2 MULTICOPPER OXIDASE: STRUCTURAL INSIGHTS INTO THE PROTON- JRNL TITL 3 RELAY MECHANISM AND O2-REDUCTION STATES. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 71 2396 2015 JRNL REFN ISSN 0907-4449 JRNL PMID 26627648 JRNL DOI 10.1107/S1399004715018714 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.696 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.65 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.32 REMARK 3 NUMBER OF REFLECTIONS : 45336 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.1513 REMARK 3 R VALUE (WORKING SET) : 0.1496 REMARK 3 FREE R VALUE : 0.1832 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.07 REMARK 3 FREE R VALUE TEST SET COUNT : 2299 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 28.6996 - 4.5302 0.93 2701 151 0.1577 0.1840 REMARK 3 2 4.5302 - 3.5980 0.96 2703 135 0.1205 0.1372 REMARK 3 3 3.5980 - 3.1438 0.96 2690 139 0.1275 0.1357 REMARK 3 4 3.1438 - 2.8567 0.97 2691 138 0.1352 0.1676 REMARK 3 5 2.8567 - 2.6521 0.98 2710 155 0.1452 0.1774 REMARK 3 6 2.6521 - 2.4958 0.98 2665 144 0.1517 0.2299 REMARK 3 7 2.4958 - 2.3709 0.98 2737 136 0.1489 0.1780 REMARK 3 8 2.3709 - 2.2677 0.98 2687 138 0.1442 0.1723 REMARK 3 9 2.2677 - 2.1804 0.98 2724 125 0.1435 0.1838 REMARK 3 10 2.1804 - 2.1052 0.98 2681 150 0.1435 0.1777 REMARK 3 11 2.1052 - 2.0394 0.98 2673 154 0.1473 0.1776 REMARK 3 12 2.0394 - 1.9811 0.98 2690 137 0.1538 0.2057 REMARK 3 13 1.9811 - 1.9290 0.98 2697 139 0.1572 0.1872 REMARK 3 14 1.9290 - 1.8819 0.98 2681 144 0.1678 0.2203 REMARK 3 15 1.8819 - 1.8392 0.98 2662 164 0.1794 0.2051 REMARK 3 16 1.8392 - 1.8000 0.98 2645 150 0.1889 0.2506 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 : 0.351 REMARK 3 B_SOL : 49.381 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.19 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.50 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.1275 REMARK 3 B22 (A**2) : 0.2224 REMARK 3 B33 (A**2) : -0.0949 REMARK 3 B12 (A**2) : 0.0000 REMARK 3 B13 (A**2) : 0.0000 REMARK 3 B23 (A**2) : 0.0000 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 : 0.010 3996 REMARK 3 ANGLE : 1.426 5508 REMARK 3 CHIRALITY : 0.098 600 REMARK 3 PLANARITY : 0.006 727 REMARK 3 DIHEDRAL : 18.645 1533 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: RESID 95 AND CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): -16.0086 19.8922 -3.8202 REMARK 3 T TENSOR REMARK 3 T11: 0.1257 T22: 0.0428 REMARK 3 T33: 0.1436 T12: 0.0077 REMARK 3 T13: 0.0230 T23: -0.0776 REMARK 3 L TENSOR REMARK 3 L11: 3.9626 L22: 2.4504 REMARK 3 L33: 9.2833 L12: 0.6339 REMARK 3 L13: -5.4926 L23: 0.4137 REMARK 3 S TENSOR REMARK 3 S11: -0.0726 S12: 0.0204 S13: -0.1270 REMARK 3 S21: -0.4071 S22: 0.0749 S23: -0.0146 REMARK 3 S31: 0.3573 S32: 0.1167 S33: 0.0908 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HIS 95 WAS REFINED AS THE SINGLE MEMBER REMARK 3 OF A TLS GROUP. REMARK 4 REMARK 4 2YAR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-FEB-11. REMARK 100 THE PDBE ID CODE IS EBI-47469. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 8 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X6A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : DOUBLE CRYSTAL CHANNEL CUT, REMARK 200 SI(111), 1M LONG RH REMARK 200 COATED TOROIDAL MIRROR FOR REMARK 200 VERTICAL AND HORIZONTAL REMARK 200 FOCUSING. REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45336 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.80 REMARK 200 RESOLUTION RANGE LOW (A) : 29.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 3.8 REMARK 200 R MERGE (I) : 0.14 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.90 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.8 REMARK 200 R MERGE FOR SHELL (I) : 0.31 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.00 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: PDB ENTRY 2XU9 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES PH 7.5, 70% MPD REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z 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 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 48.22300 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 48.22300 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 46.85600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.19700 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 46.85600 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.19700 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 48.22300 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 46.85600 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 55.19700 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 48.22300 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 46.85600 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 55.19700 REMARK 290 SMTRY3 8 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -264.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 48.22300 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 A2187 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2283 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2286 LIES ON A SPECIAL POSITION. 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 NZ LYS A 217 O HOH A 2270 1.44 REMARK 500 O THR A 338 O HOH A 2384 1.85 REMARK 500 O HOH A 2022 O HOH A 2258 1.98 REMARK 500 O HOH A 2041 O HOH A 2074 2.13 REMARK 500 O HOH A 2050 O HOH A 2051 1.93 REMARK 500 O HOH A 2051 O HOH A 2117 1.71 REMARK 500 O HOH A 2121 O HOH A 2197 1.85 REMARK 500 O HOH A 2121 O HOH A 2122 2.05 REMARK 500 O HOH A 2128 O HOH A 2129 1.87 REMARK 500 O HOH A 2168 O HOH A 2169 1.88 REMARK 500 O HOH A 2200 O HOH A 2436 1.62 REMARK 500 O HOH A 2212 O HOH A 2270 1.78 REMARK 500 O HOH A 2219 O HOH A 2478 2.03 REMARK 500 O HOH A 2239 O HOH A 2246 2.06 REMARK 500 O HOH A 2264 O HOH A 2265 1.80 REMARK 500 O HOH A 2382 O HOH A 2450 2.13 REMARK 500 O HOH A 2391 O HOH A 2470 2.03 REMARK 500 O HOH A 2436 O HOH A 2477 1.94 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 2192 O HOH A 2192 3555 1.11 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 MET A 301 CA MET A 301 CB -0.223 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 MET A 301 N - CA - CB ANGL. DEV. = -11.1 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 ARG A 77 -6.10 80.61 REMARK 500 VAL A 105 -61.01 -98.57 REMARK 500 HIS A 137 56.07 -145.11 REMARK 500 ALA A 230 -20.42 -153.44 REMARK 500 ALA A 247 -159.07 -102.31 REMARK 500 MET A 301 -123.97 -68.58 REMARK 500 ALA A 302 49.35 84.32 REMARK 500 LEU A 333 -101.87 -113.65 REMARK 500 VAL A 399 -34.65 73.07 REMARK 500 ARG A 436 -97.31 -107.46 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 CU A1463 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 OH A1480 O REMARK 620 2 HIS A 398 NE2 114.2 REMARK 620 3 HIS A 444 NE2 95.2 123.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A1464 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 135 NE2 REMARK 620 2 HIS A 446 NE2 112.0 REMARK 620 3 HIS A 97 ND1 141.6 105.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A1465 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 393 ND1 REMARK 620 2 HIS A 450 ND1 104.5 REMARK 620 3 CYS A 445 SG 123.6 131.2 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A1463 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A1464 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A1465 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A1466 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A1467 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A1468 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A1469 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A1470 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A1471 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A1472 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A1473 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A1474 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A1475 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A1476 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A1477 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A1478 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A1479 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OH A1480 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2YAH RELATED DB: PDB REMARK 900 X-RAY INDUCED REDUCTION OF LACCASE FROM THERMUS REMARK 900 THERMOPHILUS HB27 (25.0-37.5 PERCENT DOSE) REMARK 900 RELATED ID: 2XVB RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF LACCASE FROM THERMUS THERMOPHILUS REMARK 900 HB27 COMPLEXED WITH HG, CRYSTAL OF THE APOENZYME REMARK 900 SOAKED FOR 5 MIN. IN 5 MM HGCL2 AT 278 K. REMARK 900 RELATED ID: 2XU9 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF LACCASE FROM THERMUS THERMOPHILUS REMARK 900 HB27 REMARK 900 RELATED ID: 2YAE RELATED DB: PDB REMARK 900 X-RAY INDUCED REDUCTION OF LACCASE FROM THERMUS REMARK 900 THERMOPHILUS HB27(0.0-12.5 PERCENT DOSE) REMARK 900 RELATED ID: 2XUW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF APOLACCASE FROM THERMUS THERMOPHILUS REMARK 900 HB27 REMARK 900 RELATED ID: 2YAF RELATED DB: PDB REMARK 900 X-RAY INDUCED REDUCTION OF LACCASE FROM THERMUS REMARK 900 THERMOPHILUS HB27 (12.5-25.0 PERCENT DOSE) REMARK 900 RELATED ID: 2YAO RELATED DB: PDB REMARK 900 X-RAY INDUCED REDUCTION OF LACCASE FROM THERMUS REMARK 900 THERMOPHILUS HB27 (50.0-62.5 PERCENT DOSE) REMARK 900 RELATED ID: 2YAQ RELATED DB: PDB REMARK 900 X-RAY INDUCED REDUCTION OF LACCASE FROM THERMUS REMARK 900 THERMOPHILUS HB27 (75.0-87.5 PERCENT DOSE) REMARK 900 RELATED ID: 2YAP RELATED DB: PDB REMARK 900 X-RAY INDUCED REDUCTION OF LACCASE FROM THERMUS REMARK 900 THERMOPHILUS HB27 (62.5-75.0 PERCENT DOSE) REMARK 900 RELATED ID: 2YAM RELATED DB: PDB REMARK 900 X-RAY INDUCED REDUCTION OF LACCASE FROM THERMUS REMARK 900 THERMOPHILUS HB27 (37.5-50.0 PERCENT DOSE) REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE AT THE UNIPROT DEPOSIT Q72HW2 POSITION 53 IS REMARK 999 OCCUPIED BY A LEUCINE BUT THE ELECTRON DENSITY CLEARLY REMARK 999 SUPPORTS THE PRESENCE OF AN ISOLEUCINE IN THIS POSITION DBREF 2YAR A 24 462 UNP Q72HW2 Q72HW2_THET2 24 462 SEQADV 2YAR ILE A 53 UNP Q72HW2 LEU 53 SEE REMARK 999 SEQRES 1 A 439 GLY PRO SER PHE PRO GLU PRO LYS VAL VAL ARG SER GLN SEQRES 2 A 439 GLY GLY LEU LEU SER LEU LYS LEU SER ALA THR PRO THR SEQRES 3 A 439 PRO LEU ALA ILE ALA GLY GLN ARG ALA THR LEU LEU THR SEQRES 4 A 439 TYR GLY GLY SER PHE PRO GLY PRO THR LEU ARG VAL ARG SEQRES 5 A 439 PRO ARG ASP THR VAL ARG LEU THR LEU GLU ASN ARG LEU SEQRES 6 A 439 PRO GLU PRO THR ASN LEU HIS TRP HIS GLY LEU PRO ILE SEQRES 7 A 439 SER PRO LYS VAL ASP ASP PRO PHE LEU GLU ILE PRO PRO SEQRES 8 A 439 GLY GLU SER TRP THR TYR GLU PHE THR VAL PRO LYS GLU SEQRES 9 A 439 LEU ALA GLY THR PHE TRP TYR HIS PRO HIS LEU HIS GLY SEQRES 10 A 439 ARG VAL ALA PRO GLN LEU PHE ALA GLY LEU LEU GLY ALA SEQRES 11 A 439 LEU VAL VAL GLU SER SER LEU ASP ALA ILE PRO GLU LEU SEQRES 12 A 439 ARG GLU ALA GLU GLU HIS LEU LEU VAL LEU LYS ASP LEU SEQRES 13 A 439 ALA LEU GLN GLY GLY ARG PRO ALA PRO HIS THR PRO MET SEQRES 14 A 439 ASP TRP MET ASN GLY LYS GLU GLY ASP LEU VAL LEU VAL SEQRES 15 A 439 ASN GLY ALA LEU ARG PRO THR LEU VAL ALA GLN LYS ALA SEQRES 16 A 439 THR LEU ARG LEU ARG LEU LEU ASN ALA SER ASN ALA ARG SEQRES 17 A 439 TYR TYR ARG LEU ALA LEU GLN ASP HIS PRO LEU TYR LEU SEQRES 18 A 439 ILE ALA ALA ASP GLY GLY PHE LEU GLU GLU PRO LEU GLU SEQRES 19 A 439 VAL SER GLU LEU LEU LEU ALA PRO GLY GLU ARG ALA GLU SEQRES 20 A 439 VAL LEU VAL ARG LEU ARG LYS GLU GLY ARG PHE LEU LEU SEQRES 21 A 439 GLN ALA LEU PRO TYR ASP ARG GLY ALA MET GLY MET MET SEQRES 22 A 439 ASP MET GLY GLY MET ALA HIS ALA MET PRO GLN GLY PRO SEQRES 23 A 439 SER ARG PRO GLU THR LEU LEU TYR LEU ILE ALA PRO LYS SEQRES 24 A 439 ASN PRO LYS PRO LEU PRO LEU PRO LYS ALA LEU SER PRO SEQRES 25 A 439 PHE PRO THR LEU PRO ALA PRO VAL VAL THR ARG ARG LEU SEQRES 26 A 439 VAL LEU THR GLU ASP MET MET ALA ALA ARG PHE PHE ILE SEQRES 27 A 439 ASN GLY GLN VAL PHE ASP HIS ARG ARG VAL ASP LEU LYS SEQRES 28 A 439 GLY GLN ALA GLN THR VAL GLU VAL TRP GLU VAL GLU ASN SEQRES 29 A 439 GLN GLY ASP MET ASP HIS PRO PHE HIS LEU HIS VAL HIS SEQRES 30 A 439 PRO PHE GLN VAL LEU SER VAL GLY GLY ARG PRO PHE PRO SEQRES 31 A 439 TYR ARG ALA TRP LYS ASP VAL VAL ASN LEU LYS ALA GLY SEQRES 32 A 439 GLU VAL ALA ARG LEU LEU VAL PRO LEU ARG GLU LYS GLY SEQRES 33 A 439 ARG THR VAL PHE HIS CYS HIS ILE VAL GLU HIS GLU ASP SEQRES 34 A 439 ARG GLY MET MET GLY VAL LEU GLU VAL GLY HET CU A1463 1 HET CU A1464 1 HET CU A1465 1 HET MPD A1466 8 HET MRD A1467 8 HET MPD A1468 8 HET MRD A1469 8 HET MPD A1470 8 HET MRD A1471 8 HET MRD A1472 8 HET MPD A1473 8 HET MPD A1474 8 HET MPD A1475 8 HET MPD A1476 8 HET MPD A1477 8 HET MRD A1478 8 HET MRD A1479 8 HET OH A1480 2 HETNAM CU COPPER (II) ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL HETNAM OH HYDROXIDE ION FORMUL 2 CU 3(CU 2+) FORMUL 3 MPD 8(C6 H14 O2) FORMUL 4 MRD 6(C6 H14 O2) FORMUL 5 OH H O 1- FORMUL 6 HOH *501(H2 O) HELIX 1 1 ARG A 141 ALA A 148 1 8 HELIX 2 2 SER A 158 ALA A 162 5 5 HELIX 3 3 ILE A 163 GLU A 168 1 6 HELIX 4 4 THR A 190 GLY A 197 1 8 HELIX 5 5 MET A 354 ALA A 357 5 4 HELIX 6 6 ILE A 447 ARG A 453 1 7 SHEET 1 AA 5 VAL A 32 ARG A 34 0 SHEET 2 AA 5 THR A 71 VAL A 74 1 O THR A 71 N VAL A 33 SHEET 3 AA 5 GLY A 152 VAL A 156 1 O ALA A 153 N LEU A 72 SHEET 4 AA 5 GLY A 130 HIS A 135 -1 O GLY A 130 N VAL A 156 SHEET 5 AA 5 HIS A 95 HIS A 97 -1 N HIS A 95 O HIS A 135 SHEET 1 AB 4 GLN A 56 TYR A 63 0 SHEET 2 AB 4 LEU A 39 ILE A 53 -1 O THR A 47 N THR A 62 SHEET 3 AB 4 THR A 79 ASN A 86 1 O THR A 79 N LEU A 40 SHEET 4 AB 4 SER A 117 THR A 123 -1 O TRP A 118 N LEU A 84 SHEET 1 AC 7 ALA A 208 LEU A 209 0 SHEET 2 AC 7 LEU A 202 VAL A 205 -1 O VAL A 205 N ALA A 208 SHEET 3 AC 7 GLU A 170 LEU A 179 -1 O LYS A 177 N LEU A 204 SHEET 4 AC 7 THR A 219 ASN A 226 1 O THR A 219 N GLU A 170 SHEET 5 AC 7 ARG A 268 ARG A 274 -1 O ALA A 269 N LEU A 224 SHEET 6 AC 7 LEU A 242 ALA A 247 -1 O TYR A 243 N LEU A 272 SHEET 7 AC 7 GLY A 250 VAL A 258 -1 O GLY A 250 N ALA A 247 SHEET 1 AD 2 LEU A 181 GLN A 182 0 SHEET 2 AD 2 ARG A 185 PRO A 186 -1 O ARG A 185 N GLN A 182 SHEET 1 AE 5 THR A 212 VAL A 214 0 SHEET 2 AE 5 GLU A 313 ALA A 320 1 O TYR A 317 N LEU A 213 SHEET 3 AE 5 GLY A 279 LEU A 286 -1 O GLY A 279 N ALA A 320 SHEET 4 AE 5 TYR A 233 LEU A 237 -1 O ARG A 234 N LEU A 286 SHEET 5 AE 5 LEU A 261 LEU A 263 -1 O LEU A 261 N LEU A 235 SHEET 1 AF 2 MET A 293 MET A 296 0 SHEET 2 AF 2 HIS A 303 PRO A 306 -1 O HIS A 303 N MET A 296 SHEET 1 AG 6 ARG A 358 ILE A 361 0 SHEET 2 AG 6 VAL A 344 ASP A 353 -1 O THR A 351 N PHE A 360 SHEET 3 AG 6 VAL A 380 ASN A 387 1 O VAL A 382 N ARG A 346 SHEET 4 AG 6 VAL A 428 PRO A 434 -1 O ALA A 429 N VAL A 385 SHEET 5 AG 6 GLN A 403 VAL A 407 -1 O GLN A 403 N LEU A 432 SHEET 6 AG 6 ARG A 410 PRO A 411 -1 O ARG A 410 N VAL A 407 SHEET 1 AH 5 LEU A 373 GLN A 376 0 SHEET 2 AH 5 MET A 456 GLY A 462 1 O VAL A 458 N LEU A 373 SHEET 3 AH 5 GLY A 439 CYS A 445 -1 O GLY A 439 N VAL A 461 SHEET 4 AH 5 HIS A 393 LEU A 397 -1 O HIS A 396 N HIS A 444 SHEET 5 AH 5 VAL A 420 LEU A 423 -1 O VAL A 421 N PHE A 395 LINK CU CU A1463 O OH A1480 1555 1555 2.37 LINK CU CU A1463 NE2 HIS A 398 1555 1555 1.76 LINK CU CU A1463 NE2 HIS A 444 1555 1555 1.94 LINK CU CU A1464 NE2 HIS A 135 1555 1555 2.06 LINK CU CU A1464 NE2 HIS A 446 1555 1555 2.12 LINK CU CU A1464 ND1 HIS A 97 1555 1555 2.04 LINK CU CU A1465 ND1 HIS A 450 1555 1555 2.12 LINK CU CU A1465 SG CYS A 445 1555 1555 2.22 LINK CU CU A1465 ND1 HIS A 393 1555 1555 2.09 CISPEP 1 PHE A 67 PRO A 68 0 -4.83 SITE 1 AC1 5 HIS A 137 HIS A 396 HIS A 398 HIS A 444 SITE 2 AC1 5 OH A1480 SITE 1 AC2 6 HIS A 95 HIS A 97 TRP A 133 HIS A 135 SITE 2 AC2 6 HIS A 446 OH A1480 SITE 1 AC3 4 HIS A 393 CYS A 445 HIS A 450 MET A 455 SITE 1 AC4 7 ASP A 248 LEU A 263 GLU A 267 ARG A 268 SITE 2 AC4 7 TYR A 414 LYS A 418 MRD A1471 SITE 1 AC5 5 GLN A 56 LEU A 339 ARG A 436 HOH A2492 SITE 2 AC5 5 HOH A2493 SITE 1 AC6 5 PRO A 191 MET A 195 MET A 354 MET A 355 SITE 2 AC6 5 MPD A1476 SITE 1 AC7 6 THR A 212 ARG A 280 TYR A 317 HOH A2355 SITE 2 AC7 6 HOH A2490 HOH A2494 SITE 1 AC8 2 GLY A 140 ARG A 453 SITE 1 AC9 6 LEU A 256 GLU A 260 PRO A 413 MPD A1466 SITE 2 AC9 6 HOH A2304 HOH A2495 SITE 1 BC1 7 GLU A 127 LEU A 128 SER A 158 SER A 159 SITE 2 BC1 7 SER A 334 HOH A2181 HOH A2496 SITE 1 BC2 6 GLU A 257 SER A 259 LYS A 325 MRD A1478 SITE 2 BC2 6 HOH A2299 HOH A2316 SITE 1 BC3 5 PRO A 342 VAL A 343 VAL A 344 THR A 345 SITE 2 BC3 5 HOH A2390 SITE 1 BC4 8 PRO A 25 SER A 26 GLN A 216 ASN A 362 SITE 2 BC4 8 GLN A 364 HOH A2008 HOH A2264 HOH A2265 SITE 1 BC5 4 PRO A 191 TRP A 194 ARG A 453 MPD A1468 SITE 1 BC6 4 SER A 26 GLN A 376 ALA A 377 HOH A2004 SITE 1 BC7 4 ARG A 276 MPD A1473 HOH A2282 HOH A2498 SITE 1 BC8 10 PRO A 144 PRO A 188 HIS A 189 TRP A 194 SITE 2 BC8 10 HOH A2119 HOH A2195 HOH A2238 HOH A2499 SITE 3 BC8 10 HOH A2500 HOH A2501 SITE 1 BC9 9 HIS A 95 HIS A 135 HIS A 137 HIS A 396 SITE 2 BC9 9 HIS A 398 HIS A 444 HIS A 446 CU A1463 SITE 3 BC9 9 CU A1464 CRYST1 93.712 110.394 96.446 90.00 90.00 90.00 C 2 2 21 8 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 0.010671 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009058 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010368 0.00000 MASTER 505 0 18 6 36 0 33 6 0 0 0 34 END