HEADER OXIDOREDUCTASE 21-OCT-10 2XUW TITLE CRYSTAL STRUCTURE OF APOLACCASE FROM THERMUS THERMOPHILUS HB27 CAVEAT 2XUW MPD A 1474 HAS WRONG CHIRALITY AT ATOM C4 MRD A 1476 HAS CAVEAT 2 2XUW WRONG CHIRALITY AT ATOM C4 MPD A1474 C4 PLANAR COMPND MOL_ID: 1; COMPND 2 MOLECULE: LACCASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MATURE FORM, RESIDUES 24-462; COMPND 5 SYNONYM: APOLACCASE; COMPND 6 EC: 1.10.3.2; COMPND 7 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_PLASMID: PET32A KEYWDS OXIDOREDUCTASE, MULTICOPPER OXIDASES EXPDTA X-RAY DIFFRACTION AUTHOR H.SERRANO-POSADA,B.VALDERRAMA,E.RUDINO-PINERA REVDAT 4 30-OCT-19 2XUW 1 CAVEAT REMARK LINK REVDAT 3 16-DEC-15 2XUW 1 JRNL REVDAT 2 09-DEC-15 2XUW 1 JRNL REVDAT 1 26-OCT-11 2XUW 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 JRNL TITL 3 PROTON-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. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.47 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 53818 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.151 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2747 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 26.4748 - 4.6141 1.00 2724 151 0.1631 0.1838 REMARK 3 2 4.6141 - 3.6654 1.00 2632 151 0.1111 0.1568 REMARK 3 3 3.6654 - 3.2030 1.00 2618 139 0.1214 0.1235 REMARK 3 4 3.2030 - 2.9105 1.00 2594 142 0.1300 0.1584 REMARK 3 5 2.9105 - 2.7021 1.00 2605 134 0.1422 0.1862 REMARK 3 6 2.7021 - 2.5430 1.00 2562 134 0.1508 0.1689 REMARK 3 7 2.5430 - 2.4157 1.00 2584 142 0.1407 0.1889 REMARK 3 8 2.4157 - 2.3106 1.00 2563 128 0.1443 0.1631 REMARK 3 9 2.3106 - 2.2217 1.00 2574 136 0.1367 0.2008 REMARK 3 10 2.2217 - 2.1451 1.00 2563 137 0.1469 0.1955 REMARK 3 11 2.1451 - 2.0780 1.00 2554 135 0.1463 0.1780 REMARK 3 12 2.0780 - 2.0186 1.00 2573 120 0.1510 0.2195 REMARK 3 13 2.0186 - 1.9655 1.00 2545 132 0.1516 0.1814 REMARK 3 14 1.9655 - 1.9176 0.99 2547 136 0.1648 0.2165 REMARK 3 15 1.9176 - 1.8740 0.99 2519 145 0.1663 0.2361 REMARK 3 16 1.8740 - 1.8341 0.99 2510 153 0.1726 0.1978 REMARK 3 17 1.8341 - 1.7974 0.99 2520 129 0.1757 0.2044 REMARK 3 18 1.7974 - 1.7635 0.99 2503 156 0.1850 0.2360 REMARK 3 19 1.7635 - 1.7320 0.99 2522 132 0.2091 0.2457 REMARK 3 20 1.7320 - 1.7027 0.88 2259 115 0.2510 0.2938 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 : 0.36 REMARK 3 B_SOL : 51.01 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.180 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.610 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.29 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.99 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.12690 REMARK 3 B22 (A**2) : 0.42590 REMARK 3 B33 (A**2) : -0.55270 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.015 4324 REMARK 3 ANGLE : 1.992 6010 REMARK 3 CHIRALITY : 0.151 653 REMARK 3 PLANARITY : 0.010 813 REMARK 3 DIHEDRAL : 18.454 1687 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2XUW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-OCT-10. REMARK 100 THE DEPOSITION ID IS D_1290045832. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-MAR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 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) : 1.3747 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : DOUBLE CRYSTAL CHANNEL CUT, REMARK 200 SI(111), 1M LONG RH COATED REMARK 200 TOROIDAL MIRROR FOR VERTICAL AND REMARK 200 HORIZONTAL FOCUSSING. REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53818 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 26.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 8.100 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 82.1 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.45000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.750 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 (%): 50.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M 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 48.17250 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 48.17250 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 46.50900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.06250 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 46.50900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.06250 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 48.17250 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 46.50900 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 55.06250 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 48.17250 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 46.50900 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 55.06250 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: 9890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -320.0 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 48.17250 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 A2087 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2139 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2303 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, LEU 53 TO ILE 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 2234 O HOH A 2238 1.65 REMARK 500 O HOH A 2062 O HOH A 2220 1.67 REMARK 500 SD MET A 301 CE1 HIS A 303 1.72 REMARK 500 O HOH A 2040 O HOH A 2064 1.73 REMARK 500 O GLY A 300 O MET A 301 1.79 REMARK 500 O HOH A 2279 O HOH A 2280 1.87 REMARK 500 O THR A 338 O HOH A 2398 1.89 REMARK 500 O HOH A 2056 O HOH A 2216 1.96 REMARK 500 O HOH A 2206 O HOH A 2443 1.96 REMARK 500 O HOH A 2254 O HOH A 2264 1.99 REMARK 500 O HOH A 2447 O HOH A 2449 2.00 REMARK 500 O HOH A 2091 O HOH A 2251 2.00 REMARK 500 O HOH A 2143 O HOH A 2144 2.00 REMARK 500 OD1 ASP A 161 O HOH A 2231 2.01 REMARK 500 O HOH A 2088 O HOH A 2187 2.02 REMARK 500 O HOH A 2007 O HOH A 2281 2.04 REMARK 500 O HOH A 2013 O HOH A 2015 2.06 REMARK 500 NE2 GLN A 56 O HOH A 2083 2.07 REMARK 500 O HOH A 2197 O HOH A 2404 2.09 REMARK 500 SD MET A 301 ND1 HIS A 303 2.12 REMARK 500 O HOH A 2294 O HOH A 2506 2.13 REMARK 500 O HOH A 2135 O HOH A 2308 2.14 REMARK 500 O HOH A 2061 O HOH A 2107 2.16 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 2326 O HOH A 2388 4545 2.17 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 SER A 158 CA SER A 158 CB 0.095 REMARK 500 ARG A 410 CZ ARG A 410 NH2 0.092 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. = -14.4 DEGREES REMARK 500 ARG A 347 CA - C - N ANGL. DEV. = -13.4 DEGREES REMARK 500 ARG A 410 NE - CZ - NH1 ANGL. DEV. = -4.8 DEGREES REMARK 500 VAL A 420 CG1 - CB - CG2 ANGL. DEV. = 10.9 DEGREES REMARK 500 LEU A 432 CB - CG - CD2 ANGL. DEV. = -26.5 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 PRO A 68 171.99 -58.31 REMARK 500 ARG A 77 -6.65 81.88 REMARK 500 ASN A 93 -168.52 -164.25 REMARK 500 ALA A 230 -21.19 -152.29 REMARK 500 ALA A 247 -159.23 -102.88 REMARK 500 MET A 301 169.99 47.53 REMARK 500 ASN A 323 70.15 30.69 REMARK 500 LEU A 333 -97.53 -117.01 REMARK 500 LEU A 333 -99.18 -117.01 REMARK 500 VAL A 399 -37.40 73.65 REMARK 500 VAL A 399 -18.96 58.90 REMARK 500 ARG A 436 -98.78 -104.83 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY A 300 MET A 301 134.57 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLY A 300 -10.35 REMARK 500 ARG A 347 17.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2088 DISTANCE = 5.99 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1463 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 1464 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1465 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 1466 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1467 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 1468 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 1469 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1470 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1471 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1472 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 1473 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1474 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1475 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 1476 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 1477 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1478 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2XU9 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF LACCASE FROM THERMUS THERMOPHILUS HB27 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE AT THE UNIPROT DEPOSIT Q4H436 POSITION 53 IS REMARK 999 OCCUPIED BY A LEUCINE BUT THE ELECTRON DENSITY CLEARLY REMARK 999 SUPPORT THE PRESENCE OF AN ISOLEUCINE IN THIS POSITION. DBREF 2XUW A 24 462 UNP Q72HW2 Q72HW2_THET2 24 462 SEQADV 2XUW 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 MPD A1463 8 HET MRD A1464 8 HET MPD A1465 8 HET MRD A1466 8 HET MPD A1467 8 HET MRD A1468 8 HET MRD A1469 8 HET MPD A1470 8 HET MPD A1471 8 HET MPD A1472 8 HET MRD A1473 8 HET MPD A1474 8 HET MPD A1475 8 HET MRD A1476 8 HET MRD A1477 8 HET MPD A1478 8 HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL FORMUL 2 MPD 9(C6 H14 O2) FORMUL 3 MRD 7(C6 H14 O2) FORMUL 18 HOH *525(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 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 PHE A 402 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 6 ARG A 358 ILE A 361 0 SHEET 2 AH 6 VAL A 344 ASP A 353 -1 O THR A 351 N PHE A 360 SHEET 3 AH 6 VAL A 380 ASN A 387 1 O VAL A 382 N ARG A 346 SHEET 4 AH 6 VAL A 428 PRO A 434 -1 O ALA A 429 N VAL A 385 SHEET 5 AH 6 PHE A 402 VAL A 407 -1 O GLN A 403 N LEU A 432 SHEET 6 AH 6 TRP A 417 LYS A 418 -1 O LYS A 418 N PHE A 402 SHEET 1 AI 2 ARG A 410 PRO A 411 0 SHEET 2 AI 2 PHE A 402 VAL A 407 1 O VAL A 407 N ARG A 410 SHEET 1 AJ 5 LEU A 373 GLN A 376 0 SHEET 2 AJ 5 MET A 456 GLY A 462 1 O VAL A 458 N LEU A 373 SHEET 3 AJ 5 GLY A 439 CYS A 445 -1 O GLY A 439 N VAL A 461 SHEET 4 AJ 5 HIS A 393 LEU A 397 -1 O HIS A 396 N HIS A 444 SHEET 5 AJ 5 VAL A 420 LEU A 423 -1 O VAL A 421 N PHE A 395 CISPEP 1 PHE A 67 PRO A 68 0 -16.33 CISPEP 2 PHE A 67 PRO A 68 0 3.02 CISPEP 3 MET A 301 ALA A 302 0 5.80 SITE 1 AC1 8 ALA A 247 ASP A 248 LEU A 263 GLU A 267 SITE 2 AC1 8 ARG A 268 TYR A 414 LYS A 418 MPD A1470 SITE 1 AC2 4 GLN A 56 LEU A 339 HOH A2516 HOH A2517 SITE 1 AC3 6 LYS A 104 ARG A 280 TYR A 317 HOH A2376 SITE 2 AC3 6 HOH A2513 HOH A2514 SITE 1 AC4 4 PRO A 191 MET A 295 MET A 355 MRD A1473 SITE 1 AC5 3 PRO A 342 VAL A 343 THR A 345 SITE 1 AC6 9 PRO A 25 SER A 26 GLN A 216 ASN A 362 SITE 2 AC6 9 GLN A 364 HOH A2005 HOH A2007 HOH A2519 SITE 3 AC6 9 HOH A2520 SITE 1 AC7 4 GLY A 140 TRP A 194 ARG A 453 MPD A1474 SITE 1 AC8 7 LEU A 256 GLU A 260 LEU A 261 PRO A 413 SITE 2 AC8 7 MPD A1463 HOH A2331 HOH A2521 SITE 1 AC9 7 GLU A 127 LEU A 128 SER A 158 SER A 334 SITE 2 AC9 7 HOH A2198 HOH A2394 HOH A2522 SITE 1 BC1 3 LYS A 31 GLY A 64 HOH A2523 SITE 1 BC2 6 PRO A 191 TRP A 194 MET A 355 ALA A 356 SITE 2 BC2 6 ARG A 453 MRD A1466 SITE 1 BC3 7 PRO A 144 PRO A 188 HIS A 189 TRP A 194 SITE 2 BC3 7 MRD A1469 HOH A2210 HOH A2253 SITE 1 BC4 7 PHE A 122 THR A 123 ARG A 311 MPD A1478 SITE 2 BC4 7 HOH A2146 HOH A2500 HOH A2525 SITE 1 BC5 9 PRO A 108 PHE A 109 HIS A 137 LEU A 138 SITE 2 BC5 9 HIS A 139 PHE A 366 HIS A 368 MET A 456 SITE 3 BC5 9 HOH A2207 SITE 1 BC6 5 GLU A 257 ARG A 276 HOH A2308 HOH A2324 SITE 2 BC6 5 HOH A2340 SITE 1 BC7 9 SER A 102 TYR A 317 GLU A 437 MPD A1475 SITE 2 BC7 9 HOH A2146 HOH A2180 HOH A2374 HOH A2377 SITE 3 BC7 9 HOH A2500 CRYST1 93.018 110.125 96.345 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 0.010751 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009081 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010379 0.00000 MASTER 482 0 16 5 44 0 30 6 0 0 0 34 END