HEADER OXIDOREDUCTASE 25-OCT-10 2XVB TITLE CRYSTAL STRUCTURE OF LACCASE FROM THERMUS THERMOPHILUS HB27 COMPLEXED TITLE 2 WITH HG, CRYSTAL OF THE APOENZYME SOAKED FOR 5 MIN. IN 5 MM HGCL2 AT TITLE 3 278 K. 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_PLASMID: PET32A KEYWDS OXIDOREDUCTASE, MULTICOPPER OXIDASES EXPDTA X-RAY DIFFRACTION AUTHOR H.SERRANO-POSADA,B.VALDERRAMA,E.RUDINO-PINERA REVDAT 4 20-DEC-23 2XVB 1 REMARK LINK REVDAT 3 16-DEC-15 2XVB 1 JRNL REVDAT 2 09-DEC-15 2XVB 1 JRNL REVDAT 1 26-OCT-11 2XVB 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) : 19.69 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.910 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 54841 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.154 REMARK 3 R VALUE (WORKING SET) : 0.153 REMARK 3 FREE R VALUE : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2761 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 19.6903 - 4.5959 1.00 2742 165 0.1652 0.1611 REMARK 3 2 4.5959 - 3.6555 1.00 2683 120 0.1191 0.1258 REMARK 3 3 3.6555 - 3.1957 1.00 2638 141 0.1288 0.1391 REMARK 3 4 3.1957 - 2.9045 1.00 2614 141 0.1366 0.1692 REMARK 3 5 2.9045 - 2.6969 1.00 2624 133 0.1441 0.1723 REMARK 3 6 2.6969 - 2.5382 1.00 2630 133 0.1499 0.1853 REMARK 3 7 2.5382 - 2.4113 1.00 2563 139 0.1491 0.1759 REMARK 3 8 2.4113 - 2.3065 1.00 2630 130 0.1509 0.1835 REMARK 3 9 2.3065 - 2.2179 1.00 2601 135 0.1458 0.1918 REMARK 3 10 2.2179 - 2.1414 1.00 2585 128 0.1468 0.1814 REMARK 3 11 2.1414 - 2.0746 1.00 2567 151 0.1434 0.1766 REMARK 3 12 2.0746 - 2.0153 1.00 2609 139 0.1545 0.2001 REMARK 3 13 2.0153 - 1.9623 1.00 2576 133 0.1585 0.1846 REMARK 3 14 1.9623 - 1.9145 1.00 2570 147 0.1620 0.1964 REMARK 3 15 1.9145 - 1.8710 1.00 2585 144 0.1723 0.1841 REMARK 3 16 1.8710 - 1.8312 1.00 2573 141 0.1788 0.2390 REMARK 3 17 1.8312 - 1.7946 1.00 2559 140 0.1859 0.2444 REMARK 3 18 1.7946 - 1.7607 1.00 2588 129 0.1917 0.2204 REMARK 3 19 1.7607 - 1.7293 1.00 2594 123 0.2107 0.2730 REMARK 3 20 1.7293 - 1.7000 1.00 2549 149 0.2273 0.2849 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 : 0.37 REMARK 3 B_SOL : 51.57 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.940 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.75 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.99 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.13010 REMARK 3 B22 (A**2) : 0.58440 REMARK 3 B33 (A**2) : -0.45430 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 : 0.019 4100 REMARK 3 ANGLE : 1.977 5658 REMARK 3 CHIRALITY : 0.109 611 REMARK 3 PLANARITY : 0.009 748 REMARK 3 DIHEDRAL : 19.393 1583 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 2XVB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-OCT-10. REMARK 100 THE DEPOSITION ID IS D_1290045865. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-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) : 0.8321 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 FOCUSING. 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 : 59564 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : 9.900 REMARK 200 R MERGE (I) : 0.13000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.1400 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 (%) : 91.4 REMARK 200 DATA REDUNDANCY IN SHELL : 10.30 REMARK 200 R MERGE FOR SHELL (I) : 0.35000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.720 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 (%): 50.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES PH 7.5,70 % MPD. BEFORE REMARK 280 DATA COLLECTION THE CRYSTAL WAS SOAKED FOR 5 MINUTES IN 5 MM REMARK 280 HGCL2 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 48.17150 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 48.17150 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 46.72800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.09150 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 46.72800 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.09150 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 48.17150 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 46.72800 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 55.09150 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 48.17150 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 46.72800 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 55.09150 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 A2069 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2153 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2241 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2244 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2293 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 NE2 HIS A 303 HG HG A 1467 1.19 REMARK 500 SD MET A 296 HG HG A 1467 1.43 REMARK 500 O HOH A 2164 O HOH A 2375 1.51 REMARK 500 O2 MPD A 1474 O HOH A 2446 1.55 REMARK 500 C5 MPD A 1475 O HOH A 2448 1.57 REMARK 500 CZ2 TRP A 194 C5 MPD A 1474 1.62 REMARK 500 NE2 HIS A 396 HG HG A 1465 1.64 REMARK 500 NE2 HIS A 95 HG HG A 1465 1.69 REMARK 500 O2 MPD A 1473 O4 MPD A 1482 1.74 REMARK 500 O HOH A 2099 O HOH A 2100 1.85 REMARK 500 O THR A 338 O HOH A 2332 2.07 REMARK 500 C SER A 158 CM MPD A 1472 2.12 REMARK 500 N SER A 159 CM MPD A 1472 2.13 REMARK 500 O HOH A 2368 O HOH A 2374 2.15 REMARK 500 O HOH A 2137 O HOH A 2138 2.17 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 2140 O HOH A 2426 8445 1.93 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 195 SD MET A 195 CE 0.503 REMARK 500 MET A 296 CB MET A 296 CG -0.271 REMARK 500 MET A 296 SD MET A 296 CE 0.750 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 192 CG - SD - CE ANGL. DEV. = -13.8 DEGREES REMARK 500 MET A 195 CG - SD - CE ANGL. DEV. = 20.1 DEGREES REMARK 500 MET A 296 CA - CB - CG ANGL. DEV. = 22.8 DEGREES REMARK 500 MET A 296 CB - CG - SD ANGL. DEV. = 35.8 DEGREES REMARK 500 MET A 296 CG - SD - CE ANGL. DEV. = -32.8 DEGREES REMARK 500 ARG A 347 NE - CZ - NH1 ANGL. DEV. = -6.1 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 PRO A 68 170.87 -58.15 REMARK 500 ARG A 77 -5.74 79.28 REMARK 500 ASN A 93 -166.89 -160.83 REMARK 500 ALA A 230 -20.06 -150.48 REMARK 500 ALA A 247 -158.41 -102.92 REMARK 500 ALA A 302 66.18 -100.21 REMARK 500 LEU A 333 -98.26 -117.41 REMARK 500 LEU A 333 -100.23 -117.41 REMARK 500 VAL A 399 -37.56 74.91 REMARK 500 VAL A 399 -15.44 58.73 REMARK 500 ARG A 436 -96.42 -103.35 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 HG A1466 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 137 ND1 REMARK 620 2 HIS A 398 NE2 122.8 REMARK 620 3 HIS A 444 NE2 126.1 93.8 REMARK 620 4 HOH A2156 O 59.0 154.6 104.4 REMARK 620 5 HOH A2434 O 114.7 105.8 86.6 58.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HG A1463 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 393 ND1 REMARK 620 2 HIS A 450 ND1 101.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HG A1464 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 446 NE2 REMARK 620 2 HOH A2434 O 73.1 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HG A 1463 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HG A 1464 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HG A 1465 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HG A 1466 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HG A 1467 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1468 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1469 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 1470 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD 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 MPD 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 MPD A 1477 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 1478 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1479 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1480 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1481 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1482 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 1483 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 1484 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 900 RELATED ID: 2XUW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF APOLACCASE FROM THERMUS THERMOPHILUS HB27 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE AT THE UNIPROT POSITION 53 IS OCCUPIED REMARK 999 BY A LEUCINE BUT THE ELECTRON DENSITY CLEARLY SUPPORTS REMARK 999 THE PRESENCE OF AN ISOLEUCINE IN THIS POSITION. DBREF 2XVB A 24 462 UNP Q72HW2 Q72HW2_THET2 24 462 SEQADV 2XVB 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 HG A1463 1 HET HG A1464 1 HET HG A1465 1 HET HG A1466 1 HET HG A1467 1 HET MPD A1468 8 HET MPD A1469 8 HET MRD A1470 8 HET MRD A1471 8 HET MPD A1472 8 HET MPD A1473 8 HET MPD A1474 8 HET MPD A1475 8 HET MRD A1476 8 HET MPD A1477 8 HET MRD A1478 8 HET MPD A1479 8 HET MPD A1480 8 HET MPD A1481 8 HET MPD A1482 8 HET MRD A1483 8 HET MRD A1484 8 HETNAM HG MERCURY (II) ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL FORMUL 2 HG 5(HG 2+) FORMUL 7 MPD 11(C6 H14 O2) FORMUL 9 MRD 6(C6 H14 O2) FORMUL 24 HOH *455(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 6 LEU A 202 VAL A 205 0 SHEET 2 AC 6 GLU A 170 LEU A 179 -1 O LYS A 177 N LEU A 204 SHEET 3 AC 6 THR A 219 ASN A 226 1 O THR A 219 N GLU A 170 SHEET 4 AC 6 ARG A 268 ARG A 274 -1 O ALA A 269 N LEU A 224 SHEET 5 AC 6 LEU A 242 ALA A 247 -1 O TYR A 243 N LEU A 272 SHEET 6 AC 6 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 295 0 SHEET 2 AF 2 ALA A 304 PRO A 306 -1 O MET A 305 N GLY A 294 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 GLY A 375 0 SHEET 2 AJ 5 MET A 456 VAL A 461 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 LINK ND1 HIS A 137 HG HG A1466 1555 1555 2.21 LINK SD MET A 301 HG HG A1467 1555 1555 2.36 LINK ND1 HIS A 393 HG HG A1463 1555 1555 2.03 LINK NE2 HIS A 398 HG HG A1466 1555 1555 2.17 LINK NE2 HIS A 444 HG HG A1466 1555 1555 2.05 LINK NE2 HIS A 446 HG HG A1464 1555 1555 2.20 LINK ND1 HIS A 450 HG HG A1463 1555 1555 2.24 LINK HG HG A1464 O HOH A2434 1555 1555 2.54 LINK HG HG A1466 O HOH A2156 1555 1555 3.08 LINK HG HG A1466 O HOH A2434 1555 1555 2.58 CISPEP 1 PHE A 67 PRO A 68 0 1.42 CISPEP 2 PHE A 67 PRO A 68 0 -13.83 SITE 1 AC1 4 HIS A 393 CYS A 445 HIS A 450 MET A 455 SITE 1 AC2 5 HIS A 97 TRP A 133 HIS A 135 HIS A 446 SITE 2 AC2 5 HOH A2434 SITE 1 AC3 4 HIS A 95 HIS A 97 HIS A 396 HIS A 398 SITE 1 AC4 5 HIS A 137 HIS A 398 HIS A 444 HOH A2156 SITE 2 AC4 5 HOH A2434 SITE 1 AC5 4 MET A 296 MET A 301 HIS A 303 MET A 305 SITE 1 AC6 8 ALA A 247 ASP A 248 LEU A 263 GLU A 267 SITE 2 AC6 8 ARG A 268 TYR A 414 LYS A 418 MPD A1479 SITE 1 AC7 5 ARG A 280 TYR A 317 HOH A2440 HOH A2442 SITE 2 AC7 5 HOH A2443 SITE 1 AC8 4 GLN A 56 LEU A 339 HOH A2055 HOH A2444 SITE 1 AC9 5 PRO A 342 VAL A 343 VAL A 344 THR A 345 SITE 2 AC9 5 HOH A2338 SITE 1 BC1 7 ARG A 75 PRO A 76 GLU A 157 SER A 158 SITE 2 BC1 7 SER A 159 HOH A2173 HOH A2445 SITE 1 BC2 5 GLY A 140 TRP A 194 ARG A 453 MPD A1474 SITE 2 BC2 5 MPD A1482 SITE 1 BC3 8 PRO A 144 PRO A 188 HIS A 189 TRP A 194 SITE 2 BC3 8 MPD A1473 HOH A2160 HOH A2198 HOH A2446 SITE 1 BC4 4 GLY A 64 PRO A 70 HOH A2068 HOH A2448 SITE 1 BC5 8 PRO A 28 GLU A 29 PHE A 67 ASN A 206 SITE 2 BC5 8 HOH A2047 HOH A2070 HOH A2072 HOH A2449 SITE 1 BC6 8 PRO A 25 SER A 26 GLN A 216 ASN A 362 SITE 2 BC6 8 GLN A 364 HOH A2004 HOH A2006 HOH A2450 SITE 1 BC7 9 ASP A 289 GLY A 291 ASP A 390 MET A 391 SITE 2 BC7 9 ASP A 392 LYS A 424 ALA A 425 HOH A2390 SITE 3 BC7 9 HOH A2414 SITE 1 BC8 5 LEU A 256 GLU A 260 LEU A 261 MPD A1468 SITE 2 BC8 5 HOH A2452 SITE 1 BC9 6 GLU A 127 LEU A 128 SER A 158 SER A 159 SITE 2 BC9 6 SER A 334 HOH A2453 SITE 1 CC1 5 PRO A 241 GLU A 257 MRD A1483 HOH A2262 SITE 2 CC1 5 HOH A2454 SITE 1 CC2 2 PRO A 191 MPD A1473 SITE 1 CC3 8 HIS A 240 PRO A 241 SER A 259 ARG A 276 SITE 2 CC3 8 MPD A1481 HOH A2242 HOH A2264 HOH A2455 SITE 1 CC4 4 MET A 192 MET A 195 MET A 354 MET A 355 CRYST1 93.456 110.183 96.343 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 0.010700 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009076 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010380 0.00000