HEADER OXIDOREDUCTASE 20-APR-22 7ZN6 TITLE CRYSTAL STRUCTURE OF LACCASE-LIKE MULTICOPPER OXIDASE (LMCO) FROM TITLE 2 THERMOTHELOMYCES THERMOPHILUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: LACCASE-LIKE MULTICOPPER OXIDASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: LMCO; COMPND 5 EC: 1.-.-.-,1.10.3.2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTHELOMYCES THERMOPHILUS ATCC 42464; SOURCE 3 ORGANISM_TAXID: 573729; SOURCE 4 STRAIN: ATCC 42464 / BCRC 31852 / DSM 1799; SOURCE 5 GENE: LMCO1, MYCTH_2063133; SOURCE 6 EXPRESSION_SYSTEM: KOMAGATAELLA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922 KEYWDS OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR C.KOSINAS,M.DIMAROGONA,A.ZERVA,E.TOPAKAS REVDAT 3 01-MAY-24 7ZN6 1 REMARK REVDAT 2 12-JUL-23 7ZN6 1 JRNL REVDAT 1 28-JUN-23 7ZN6 0 JRNL AUTH C.KOSINAS,A.ZERVA,E.TOPAKAS,M.DIMAROGONA JRNL TITL STRUCTURE-FUNCTION STUDIES OF A NOVEL LACCASE-LIKE JRNL TITL 2 MULTICOPPER OXIDASE FROM THERMOTHELOMYCES THERMOPHILA JRNL TITL 3 PROVIDE INSIGHTS INTO ITS BIOLOGICAL ROLE. JRNL REF ACTA CRYSTALLOGR D STRUCT V. 79 641 2023 JRNL REF 2 BIOL JRNL REFN ISSN 2059-7983 JRNL PMID 37326583 JRNL DOI 10.1107/S2059798323004175 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 74.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 51486 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.986 REMARK 3 FREE R VALUE TEST SET COUNT : 2567 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3625 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2430 REMARK 3 BIN FREE R VALUE SET COUNT : 181 REMARK 3 BIN FREE R VALUE : 0.2600 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4523 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 80 REMARK 3 SOLVENT ATOMS : 345 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.06 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.86700 REMARK 3 B22 (A**2) : -1.86700 REMARK 3 B33 (A**2) : 3.73300 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.121 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.114 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.092 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.184 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.974 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4763 ; 0.012 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4294 ; 0.001 ; 0.015 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6492 ; 1.700 ; 1.666 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9915 ; 1.358 ; 1.585 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 582 ; 8.025 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 257 ;33.459 ;21.868 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 707 ;13.715 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;22.054 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 609 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5429 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1108 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 791 ; 0.198 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 38 ; 0.194 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2250 ; 0.169 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 293 ; 0.158 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 5 ; 0.038 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2316 ; 1.437 ; 2.225 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2315 ; 1.437 ; 2.224 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2896 ; 2.282 ; 3.329 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2897 ; 2.282 ; 3.330 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2447 ; 1.890 ; 2.480 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2448 ; 1.890 ; 2.481 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3594 ; 2.980 ; 3.619 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3595 ; 2.980 ; 3.620 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 11 A 709 REMARK 3 ORIGIN FOR THE GROUP (A): 4.7826 35.7063 -0.4031 REMARK 3 T TENSOR REMARK 3 T11: 0.0832 T22: 0.0632 REMARK 3 T33: 0.0062 T12: 0.0120 REMARK 3 T13: -0.0085 T23: 0.0024 REMARK 3 L TENSOR REMARK 3 L11: 1.9419 L22: 0.8488 REMARK 3 L33: 0.9658 L12: -0.0991 REMARK 3 L13: -0.5745 L23: -0.2121 REMARK 3 S TENSOR REMARK 3 S11: -0.0425 S12: -0.0039 S13: -0.0248 REMARK 3 S21: 0.0244 S22: 0.0375 S23: 0.0620 REMARK 3 S31: -0.0333 S32: -0.0198 S33: 0.0051 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 7ZN6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-MAY-22. REMARK 100 THE DEPOSITION ID IS D_1292122449. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-DEC-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PETRA III, EMBL C/O DESY REMARK 200 BEAMLINE : P13 (MX1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER R 4M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51534 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 118.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.90 REMARK 200 R MERGE (I) : 0.10500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.94 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 11.90 REMARK 200 R MERGE FOR SHELL (I) : 1.02800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: ALPHAFOLD 2.0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M NH4CL 18% W/V PEG 6000 0.1 M MES REMARK 280 PH 5.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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 -Y,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 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 59.47400 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 89.21100 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 29.73700 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 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLU A 1 REMARK 465 PHE A 2 REMARK 465 GLY A 3 REMARK 465 THR A 4 REMARK 465 LEU A 5 REMARK 465 VAL A 6 REMARK 465 HIS A 7 REMARK 465 ASP A 8 REMARK 465 GLU A 9 REMARK 465 GLN A 10 REMARK 465 SER A 209 REMARK 465 ASN A 210 REMARK 465 PHE A 211 REMARK 465 ARG A 212 REMARK 465 ALA A 213 REMARK 465 GLY A 214 REMARK 465 ASP A 215 REMARK 465 GLY A 216 REMARK 465 THR A 217 REMARK 465 SER A 218 REMARK 465 ASN A 219 REMARK 465 SER A 220 REMARK 465 TRP A 221 REMARK 465 ASP A 222 REMARK 465 GLY A 223 REMARK 465 ILE A 224 REMARK 465 ASP A 603 REMARK 465 THR A 604 REMARK 465 HIS A 605 REMARK 465 ALA A 606 REMARK 465 PRO A 607 REMARK 465 GLU A 608 REMARK 465 VAL A 609 REMARK 465 TYR A 610 REMARK 465 HIS A 611 REMARK 465 TYR A 612 REMARK 465 PHE A 613 REMARK 465 ASP A 614 REMARK 465 ASP A 615 REMARK 465 THR A 616 REMARK 465 ASN A 617 REMARK 465 LYS A 618 REMARK 465 CYS A 619 REMARK 465 CYS A 620 REMARK 465 ALA A 621 REMARK 465 ALA A 622 REMARK 465 GLY A 623 REMARK 465 ALA A 624 REMARK 465 GLY A 625 REMARK 465 ASP A 626 REMARK 465 SER A 627 REMARK 465 GLU A 628 REMARK 465 ASP A 629 REMARK 465 SER A 630 REMARK 465 GLY A 631 REMARK 465 HIS A 632 REMARK 465 LEU A 633 REMARK 465 GLU A 634 REMARK 465 GLN A 635 REMARK 465 LYS A 636 REMARK 465 LEU A 637 REMARK 465 ILE A 638 REMARK 465 SER A 639 REMARK 465 GLU A 640 REMARK 465 GLU A 641 REMARK 465 ASP A 642 REMARK 465 LEU A 643 REMARK 465 ASN A 644 REMARK 465 SER A 645 REMARK 465 ALA A 646 REMARK 465 VAL A 647 REMARK 465 ASP A 648 REMARK 465 HIS A 649 REMARK 465 HIS A 650 REMARK 465 HIS A 651 REMARK 465 HIS A 652 REMARK 465 HIS A 653 REMARK 465 HIS A 654 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 HG CYS A 559 CU CU A 713 1.07 REMARK 500 HE2 HIS A 486 CU CU A 712 1.10 REMARK 500 HD1 HIS A 71 CU CU A 711 1.11 REMARK 500 HE2 HIS A 69 CU CU A 712 1.16 REMARK 500 HD1 HIS A 483 CU CU A 713 1.16 REMARK 500 HE2 HIS A 488 CU CU A 710 1.22 REMARK 500 HE2 HIS A 117 CU CU A 710 1.24 REMARK 500 HE2 HIS A 115 CU CU A 711 1.24 REMARK 500 HD1 HIS A 564 CU CU A 713 1.25 REMARK 500 HE2 HIS A 558 CU CU A 710 1.35 REMARK 500 HE2 HIS A 560 CU CU A 711 1.47 REMARK 500 O4 NAG B 1 O5 NAG B 2 2.05 REMARK 500 O HOH A 992 O HOH A 1089 2.09 REMARK 500 OD2 ASP A 268 O HOH A 801 2.13 REMARK 500 O HOH A 1081 O HOH A 1127 2.14 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 252 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 63 27.06 -146.75 REMARK 500 ALA A 78 58.63 -143.86 REMARK 500 SER A 86 -24.58 75.53 REMARK 500 CYS A 134 78.50 58.69 REMARK 500 PRO A 138 24.20 -72.54 REMARK 500 ALA A 199 39.61 -143.14 REMARK 500 LEU A 259 -48.17 -136.41 REMARK 500 THR A 369 -59.47 -121.62 REMARK 500 SER A 378 74.66 -160.32 REMARK 500 ALA A 476 42.89 -149.68 REMARK 500 ALA A 540 54.62 -150.30 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 SER A 280 GLU A 281 -148.47 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 A 712 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 69 NE2 REMARK 620 2 HIS A 486 NE2 175.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 711 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 71 ND1 REMARK 620 2 HIS A 115 NE2 138.2 REMARK 620 3 HIS A 560 NE2 102.1 110.0 REMARK 620 4 OXY A 707 O1 124.6 90.1 74.4 REMARK 620 5 OXY A 707 O2 102.7 101.9 92.6 26.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 710 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 117 NE2 REMARK 620 2 HIS A 488 NE2 120.0 REMARK 620 3 HIS A 558 NE2 122.4 105.4 REMARK 620 4 OXY A 707 O1 93.6 123.2 88.9 REMARK 620 5 OXY A 707 O2 109.2 96.3 98.1 26.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 713 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 483 ND1 REMARK 620 2 CYS A 559 SG 127.7 REMARK 620 3 HIS A 564 ND1 105.8 123.8 REMARK 620 N 1 2 DBREF 7ZN6 A 3 632 UNP G2QFD0 LMCO1_MYCTT 21 650 SEQADV 7ZN6 GLU A 1 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 PHE A 2 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 LEU A 633 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 GLU A 634 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 GLN A 635 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 LYS A 636 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 LEU A 637 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 ILE A 638 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 SER A 639 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 GLU A 640 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 GLU A 641 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 ASP A 642 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 LEU A 643 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 ASN A 644 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 SER A 645 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 ALA A 646 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 VAL A 647 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 ASP A 648 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 HIS A 649 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 HIS A 650 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 HIS A 651 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 HIS A 652 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 HIS A 653 UNP G2QFD0 EXPRESSION TAG SEQADV 7ZN6 HIS A 654 UNP G2QFD0 EXPRESSION TAG SEQRES 1 A 654 GLU PHE GLY THR LEU VAL HIS ASP GLU GLN PHE ILE PRO SEQRES 2 A 654 ASP HIS ILE LEU ARG VAL SER VAL ALA GLN VAL PRO SER SEQRES 3 A 654 ALA CYS GLU ASN ARG GLU ASP VAL VAL VAL ASN GLY THR SEQRES 4 A 654 SER PRO GLY PRO ALA ILE HIS LEU LEU PRO GLY ALA ARG SEQRES 5 A 654 THR TRP ILE ARG VAL TYR ASN ASP MET ASN ASP ARG ASN SEQRES 6 A 654 LEU SER MET HIS TRP HIS GLY LEU SER GLN ARG PHE ALA SEQRES 7 A 654 PRO PHE SER ASP GLY THR PRO SER ALA THR GLN TRP PRO SEQRES 8 A 654 ILE PRO PRO GLY HIS PHE PHE ASP TYR GLU ILE LEU THR SEQRES 9 A 654 GLU PRO GLU ASP ALA GLY THR TYR PHE TYR HIS SER HIS SEQRES 10 A 654 VAL GLY MET GLN ALA LEU SER CYS THR GLY PRO LEU ILE SEQRES 11 A 654 VAL GLU ASP CYS GLY SER SER PRO TYR HIS TYR ASP ASP SEQRES 12 A 654 GLU ARG ILE LEU LEU PHE GLN ASP HIS PHE GLN LYS SER SEQRES 13 A 654 ASP LEU GLU MET ILE GLN GLY LEU THR SER THR GLN PHE SEQRES 14 A 654 THR TRP THR GLY GLU THR ARG GLY ILE LEU LEU ASN GLY SEQRES 15 A 654 ARG GLY VAL SER PRO ASN GLN ALA ALA VAL GLN GLY ARG SEQRES 16 A 654 PRO GLY GLU ALA SER GLY PHE PHE GLY SER HIS ARG PHE SEQRES 17 A 654 SER ASN PHE ARG ALA GLY ASP GLY THR SER ASN SER TRP SEQRES 18 A 654 ASP GLY ILE ARG GLY ASP ASP GLN ILE GLU PRO PRO THR SEQRES 19 A 654 ASP CYS THR LEU PRO VAL ILE ASP VAL GLU PRO GLY LYS SEQRES 20 A 654 THR TYR ARG LEU ARG PHE ILE GLY ALA THR GLY LEU SER SEQRES 21 A 654 LEU LEU THR MET GLY PHE GLU ASP HIS ASN ASP LEU THR SEQRES 22 A 654 ILE VAL GLN VAL ASP GLY SER GLU TYR ASN ALA PRO VAL SEQRES 23 A 654 THR VAL ASP HIS ILE GLN LEU GLY GLY GLY GLN ARG PHE SEQRES 24 A 654 ASP VAL LEU LEU ARG THR LYS THR ALA GLU GLU LEU ARG SEQRES 25 A 654 CYS ASN GLY ASP LYS THR THR TYR PHE LEU GLN PHE GLU SEQRES 26 A 654 THR ARG ASP ARG PRO ASP PRO TYR ARG GLY TYR GLY VAL SEQRES 27 A 654 LEU ARG TYR ASN LEU GLY THR PRO VAL PRO ALA ALA PRO SEQRES 28 A 654 THR THR PRO ALA LEU THR LEU PRO ALA GLU VAL ASN ASN SEQRES 29 A 654 TRP LEU GLU TYR THR PHE GLN PRO LEU HIS PRO SER SER SEQRES 30 A 654 SER LEU SER PRO THR ALA GLU GLU VAL THR ARG ARG VAL SEQRES 31 A 654 ILE LEU GLU ALA GLU GLN LYS ILE ASP PRO ALA THR GLY SEQRES 32 A 654 ARG LEU VAL TRP LYS LEU ALA HIS MET THR TRP THR ASP SEQRES 33 A 654 MET SER ARG ASP LYS PRO VAL LEU VAL ASP ILE TYR GLU SEQRES 34 A 654 ARG GLY GLU ALA ALA MET PRO ASP TYR ALA ALA ALA LEU SEQRES 35 A 654 THR ASN TYR GLY TRP ASP PRO ALA THR LYS LEU PHE PRO SEQRES 36 A 654 ALA LYS LYS ASP GLU VAL LEU GLU ILE VAL ILE GLN ASN SEQRES 37 A 654 THR GLY SER HIS TYR SER GLY ALA SER GLY ILE VAL GLU SEQRES 38 A 654 THR HIS PRO PHE HIS ALA HIS GLY GLN HIS PHE TYR ASP SEQRES 39 A 654 VAL GLY SER GLY PRO GLY LYS TYR ASP PRO GLU ALA ASN SEQRES 40 A 654 ASN ALA LYS LEU ALA SER LEU GLY TYR ARG PRO ILE LYS SEQRES 41 A 654 ARG ASP THR THR MET VAL TYR ARG TYR GLY GLU GLY LYS SEQRES 42 A 654 VAL ALA PRO GLY GLU PRO ALA GLY TRP ARG ALA TRP ARG SEQRES 43 A 654 MET LYS MET ASN ASN PRO GLY VAL TRP MET VAL HIS CYS SEQRES 44 A 654 HIS ILE LEU ALA HIS MET ILE MET GLY MET GLU THR ILE SEQRES 45 A 654 TRP VAL VAL GLY ASP ALA GLU ASP ILE VAL THR ILE PRO SEQRES 46 A 654 LEU SER VAL SER GLN ASN TYR PHE THR TYR GLY GLY SER SEQRES 47 A 654 VAL TYR GLY ASN ASP THR HIS ALA PRO GLU VAL TYR HIS SEQRES 48 A 654 TYR PHE ASP ASP THR ASN LYS CYS CYS ALA ALA GLY ALA SEQRES 49 A 654 GLY ASP SER GLU ASP SER GLY HIS LEU GLU GLN LYS LEU SEQRES 50 A 654 ILE SER GLU GLU ASP LEU ASN SER ALA VAL ASP HIS HIS SEQRES 51 A 654 HIS HIS HIS HIS HET NAG B 1 28 HET NAG B 2 27 HET NAG A 701 28 HET EDO A 702 10 HET EDO A 703 10 HET GOL A 704 14 HET EDO A 705 10 HET GOL A 706 14 HET OXY A 707 2 HET EDO A 708 10 HET EDO A 709 10 HET CU A 710 1 HET CU A 711 1 HET CU A 712 1 HET CU A 713 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM EDO 1,2-ETHANEDIOL HETNAM GOL GLYCEROL HETNAM OXY OXYGEN MOLECULE HETNAM CU COPPER (II) ION HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 NAG 3(C8 H15 N O6) FORMUL 4 EDO 5(C2 H6 O2) FORMUL 6 GOL 2(C3 H8 O3) FORMUL 9 OXY O2 FORMUL 12 CU 4(CU 2+) FORMUL 16 HOH *345(H2 O) HELIX 1 AA1 ALA A 78 ASP A 82 5 5 HELIX 2 AA2 MET A 120 SER A 124 5 5 HELIX 3 AA3 SER A 156 SER A 166 1 11 HELIX 4 AA4 ARG A 225 GLN A 229 5 5 HELIX 5 AA5 THR A 307 ASN A 314 1 8 HELIX 6 AA6 HIS A 374 SER A 378 5 5 HELIX 7 AA7 PRO A 422 GLY A 431 1 10 HELIX 8 AA8 GLU A 432 MET A 435 5 4 HELIX 9 AA9 ASP A 437 THR A 443 1 7 HELIX 10 AB1 ASP A 503 GLY A 515 1 13 HELIX 11 AB2 ILE A 561 MET A 567 1 7 HELIX 12 AB3 ASP A 577 THR A 583 1 7 HELIX 13 AB4 SER A 589 THR A 594 5 6 SHEET 1 AA1 4 GLU A 29 VAL A 36 0 SHEET 2 AA1 4 HIS A 15 SER A 26 -1 N SER A 20 O VAL A 35 SHEET 3 AA1 4 ARG A 52 ASN A 59 1 O TYR A 58 N VAL A 19 SHEET 4 AA1 4 PHE A 97 LEU A 103 -1 O ILE A 102 N THR A 53 SHEET 1 AA2 4 ILE A 45 LEU A 47 0 SHEET 2 AA2 4 THR A 126 VAL A 131 1 O ILE A 130 N LEU A 47 SHEET 3 AA2 4 GLY A 110 HIS A 115 -1 N GLY A 110 O VAL A 131 SHEET 4 AA2 4 HIS A 69 HIS A 71 -1 N HIS A 69 O HIS A 115 SHEET 1 AA3 7 ARG A 183 GLY A 184 0 SHEET 2 AA3 7 ILE A 178 LEU A 180 -1 N LEU A 180 O ARG A 183 SHEET 3 AA3 7 ASP A 143 ASP A 151 -1 N GLN A 150 O LEU A 179 SHEET 4 AA3 7 THR A 248 GLY A 255 1 O ARG A 252 N LEU A 147 SHEET 5 AA3 7 ARG A 298 ARG A 304 -1 O VAL A 301 N LEU A 251 SHEET 6 AA3 7 LEU A 272 VAL A 277 -1 N THR A 273 O LEU A 302 SHEET 7 AA3 7 GLU A 281 VAL A 288 -1 O VAL A 286 N ILE A 274 SHEET 1 AA4 5 VAL A 240 ASP A 242 0 SHEET 2 AA4 5 ARG A 334 ARG A 340 1 O VAL A 338 N ILE A 241 SHEET 3 AA4 5 THR A 319 ARG A 327 -1 N TYR A 320 O LEU A 339 SHEET 4 AA4 5 LEU A 261 PHE A 266 -1 N GLY A 265 O GLN A 323 SHEET 5 AA4 5 ILE A 291 LEU A 293 -1 O ILE A 291 N MET A 264 SHEET 1 AA5 6 LEU A 405 LEU A 409 0 SHEET 2 AA5 6 ARG A 388 ILE A 398 -1 N GLU A 395 O LYS A 408 SHEET 3 AA5 6 VAL A 461 THR A 469 1 O VAL A 465 N LEU A 392 SHEET 4 AA5 6 PRO A 539 LYS A 548 -1 O GLY A 541 N ASN A 468 SHEET 5 AA5 6 PHE A 492 GLY A 498 -1 N TYR A 493 O ARG A 546 SHEET 6 AA5 6 LYS A 520 ARG A 521 -1 O ARG A 521 N PHE A 492 SHEET 1 AA6 5 PHE A 454 ALA A 456 0 SHEET 2 AA6 5 GLU A 570 VAL A 575 1 O ILE A 572 N PHE A 454 SHEET 3 AA6 5 GLY A 553 CYS A 559 -1 N VAL A 557 O THR A 571 SHEET 4 AA6 5 HIS A 483 ALA A 487 -1 N HIS A 486 O HIS A 558 SHEET 5 AA6 5 THR A 523 VAL A 526 -1 O VAL A 526 N HIS A 483 SSBOND 1 CYS A 28 CYS A 236 1555 1555 2.11 LINK ND2 ASN A 37 C1 NAG A 701 1555 1555 1.41 LINK ND2 ASN A 65 C1 NAG B 1 1555 1555 1.44 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.36 LINK NE2 HIS A 69 CU CU A 712 1555 1555 2.00 LINK ND1 HIS A 71 CU CU A 711 1555 1555 1.98 LINK NE2 HIS A 115 CU CU A 711 1555 1555 2.09 LINK NE2 HIS A 117 CU CU A 710 1555 1555 2.10 LINK ND1 HIS A 483 CU CU A 713 1555 1555 2.01 LINK NE2 HIS A 486 CU CU A 712 1555 1555 1.97 LINK NE2 HIS A 488 CU CU A 710 1555 1555 2.02 LINK NE2 HIS A 558 CU CU A 710 1555 1555 2.06 LINK SG CYS A 559 CU CU A 713 1555 1555 2.20 LINK NE2 HIS A 560 CU CU A 711 1555 1555 2.33 LINK ND1 HIS A 564 CU CU A 713 1555 1555 2.12 LINK O1 OXY A 707 CU CU A 710 1555 1555 2.46 LINK O2 OXY A 707 CU CU A 710 1555 1555 2.54 LINK O1 OXY A 707 CU CU A 711 1555 1555 2.63 LINK O2 OXY A 707 CU CU A 711 1555 1555 2.35 CISPEP 1 SER A 40 PRO A 41 0 2.53 CRYST1 74.855 74.855 118.948 90.00 90.00 90.00 P 43 4 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 0.013359 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013359 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008407 0.00000