HEADER OXIDOREDUCTASE 20-APR-19 6JWF TITLE HOLO FORM OF PYRANOSE DEHYDROGENASE PQQ DOMAIN FROM COPRINOPSIS TITLE 2 CINEREA COMPND MOL_ID: 1; COMPND 2 MOLECULE: EXTRACELLULAR PQQ-DEPENDENT SUGAR DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: PQQ DEPENDENT CATALYTIC DOMAIN; COMPND 5 SYNONYM: PYRANOSE DEHYDROGENASE; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: COPRINOPSIS CINEREA; SOURCE 3 ORGANISM_COMMON: INKY CAP FUNGUS; SOURCE 4 ORGANISM_TAXID: 5346; SOURCE 5 GENE: CCSDH; SOURCE 6 EXPRESSION_SYSTEM: KOMAGATAELLA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: KM71H KEYWDS PYRROLOQUINOLINE QUINONE, SUGAR DEHYDROGENASE, AA FAMILY 12, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR K.TAKEDA,T.ISHIDA,M.YOSHIDA,M.SAMEJIMA,H.OHNO,K.IGARASHI,N.NAKAMURA REVDAT 5 13-NOV-24 6JWF 1 REMARK REVDAT 4 22-NOV-23 6JWF 1 HETSYN REVDAT 3 29-JUL-20 6JWF 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE REVDAT 2 15-APR-20 6JWF 1 JRNL REVDAT 1 06-NOV-19 6JWF 0 JRNL AUTH K.TAKEDA,T.ISHIDA,M.YOSHIDA,M.SAMEJIMA,H.OHNO,K.IGARASHI, JRNL AUTH 2 N.NAKAMURA JRNL TITL CRYSTAL STRUCTURE OF THE CATALYTIC AND CYTOCHROMEBDOMAINS IN JRNL TITL 2 A EUKARYOTIC PYRROLOQUINOLINE QUINONE-DEPENDENT JRNL TITL 3 DEHYDROGENASE. JRNL REF APPL.ENVIRON.MICROBIOL. V. 85 2019 JRNL REFN ESSN 1098-5336 JRNL PMID 31604769 JRNL DOI 10.1128/AEM.01692-19 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH K.TAKEDA,T.ISHIDA,M.YOSHIDA,M.SAMEJIMA,H.OHNO,K.IGARASHI, REMARK 1 AUTH 2 N.NAKAMURA REMARK 1 TITL THE FIRST CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN AND THE REMARK 1 TITL 2 CYTOCHROME B DOMAIN IN A EUKARYOTIC PQQ-DEPENDENT REMARK 1 TITL 3 DEHYDROGENASE REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 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) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 71.07 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 202449 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM SELECTION REMARK 3 R VALUE (WORKING + TEST SET) : 0.160 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.177 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 10656 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.33 REMARK 3 REFLECTION IN BIN (WORKING SET) : 13706 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.89 REMARK 3 BIN R VALUE (WORKING SET) : 0.2450 REMARK 3 BIN FREE R VALUE SET COUNT : 722 REMARK 3 BIN FREE R VALUE : 0.2420 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6354 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 116 REMARK 3 SOLVENT ATOMS : 1520 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) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; NULL ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : NULL REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6JWF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-MAY-19. REMARK 100 THE DEPOSITION ID IS D_1300011916. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-JUL-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 213104 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.3 REMARK 200 DATA REDUNDANCY IN SHELL : 7.20 REMARK 200 R MERGE FOR SHELL (I) : 0.54300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.990 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 6JT5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5MM SODIUM ACETATE, PH 5.0, BATCH REMARK 280 MODE, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 42.66500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.10200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.81900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.10200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 42.66500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.81900 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 THR A 240 REMARK 465 THR B 240 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 863 O HOH A 1048 1.83 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 MET A 271 60.94 38.54 REMARK 500 ARG A 273 -109.64 -117.62 REMARK 500 HIS A 317 -61.23 -168.94 REMARK 500 ASP A 432 77.27 -101.48 REMARK 500 TRP A 496 -64.50 -100.03 REMARK 500 ALA A 541 65.06 62.94 REMARK 500 ASN A 564 44.61 -101.76 REMARK 500 VAL A 623 -64.55 -122.58 REMARK 500 VAL B 242 -54.91 -120.31 REMARK 500 MET B 271 60.63 39.38 REMARK 500 ARG B 273 -108.86 -119.72 REMARK 500 HIS B 317 -61.22 -170.45 REMARK 500 TYR B 362 -63.37 -90.98 REMARK 500 ASP B 432 78.03 -102.37 REMARK 500 ASN B 458 -62.30 87.87 REMARK 500 TRP B 496 -62.11 -99.24 REMARK 500 ASN B 516 61.31 38.15 REMARK 500 ALA B 541 62.68 63.94 REMARK 500 ASN B 564 46.79 -94.08 REMARK 500 VAL B 623 -64.42 -121.83 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 A1540 DISTANCE = 5.89 ANGSTROMS REMARK 525 HOH A1541 DISTANCE = 6.09 ANGSTROMS REMARK 525 HOH A1542 DISTANCE = 6.10 ANGSTROMS REMARK 525 HOH A1543 DISTANCE = 6.15 ANGSTROMS REMARK 525 HOH A1544 DISTANCE = 6.34 ANGSTROMS REMARK 525 HOH A1545 DISTANCE = 6.56 ANGSTROMS REMARK 525 HOH A1546 DISTANCE = 6.75 ANGSTROMS REMARK 525 HOH A1547 DISTANCE = 6.93 ANGSTROMS REMARK 525 HOH A1548 DISTANCE = 7.89 ANGSTROMS REMARK 525 HOH B1563 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH B1564 DISTANCE = 6.09 ANGSTROMS REMARK 525 HOH B1565 DISTANCE = 6.14 ANGSTROMS REMARK 525 HOH B1566 DISTANCE = 6.22 ANGSTROMS REMARK 525 HOH B1567 DISTANCE = 6.53 ANGSTROMS REMARK 525 HOH B1568 DISTANCE = 6.65 ANGSTROMS REMARK 525 HOH B1569 DISTANCE = 6.79 ANGSTROMS REMARK 525 HOH B1570 DISTANCE = 6.87 ANGSTROMS REMARK 525 HOH B1571 DISTANCE = 6.97 ANGSTROMS REMARK 525 HOH B1572 DISTANCE = 7.00 ANGSTROMS 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 CA A 701 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 449 O REMARK 620 2 ASP A 451 OD1 88.6 REMARK 620 3 PQQ A 702 O5 86.4 98.7 REMARK 620 4 PQQ A 702 O7A 146.2 82.5 127.1 REMARK 620 5 HOH A 845 O 95.0 176.4 82.3 94.1 REMARK 620 6 HOH A1093 O 71.8 92.4 155.3 76.1 88.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 702 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 449 O REMARK 620 2 ASP B 451 OD1 87.8 REMARK 620 3 PQQ B 703 O7B 146.1 82.3 REMARK 620 4 PQQ B 703 O5 86.7 100.5 127.0 REMARK 620 5 HOH B 824 O 95.4 176.0 93.7 82.2 REMARK 620 6 HOH B1090 O 70.8 90.4 76.9 154.6 88.4 REMARK 620 N 1 2 3 4 5 DBREF1 6JWF A 240 649 UNP A0A0A8IDB7_COPCI DBREF2 6JWF A A0A0A8IDB7 240 649 DBREF1 6JWF B 240 649 UNP A0A0A8IDB7_COPCI DBREF2 6JWF B A0A0A8IDB7 240 649 SEQRES 1 A 410 THR PHE VAL SER CYS PRO GLY ALA PRO GLN PRO ARG TYR SEQRES 2 A 410 GLN MET ASN VAL ALA ASN GLY PHE ARG VAL ALA PRO VAL SEQRES 3 A 410 LEU GLY GLY LEU THR MET PRO ARG GLY ILE THR LEU ASP SEQRES 4 A 410 THR ARG GLY ASN LEU LEU VAL VAL GLU ARG GLY ARG GLY SEQRES 5 A 410 LEU THR GLY HIS THR LEU ASP ALA ASN GLY CYS VAL THR SEQRES 6 A 410 SER SER LYS VAL VAL ILE GLN ASP THR GLN ILE ASN HIS SEQRES 7 A 410 GLY ILE ASP VAL HIS PRO SER GLY ARG ARG ILE ILE ALA SEQRES 8 A 410 SER SER GLY ASP ILE ALA TRP SER TRP ASP TYR ASP PRO SEQRES 9 A 410 ALA THR MET THR ALA THR ASN ARG ARG THR LEU VAL THR SEQRES 10 A 410 GLY MET ASN ASN PHE TYR HIS PHE THR ARG THR VAL HIS SEQRES 11 A 410 ILE SER ARG LYS TYR PRO ASN LEU PHE ALA LEU ASN VAL SEQRES 12 A 410 GLY SER ASP GLY ASN ILE ASP VAL PRO THR ARG GLN GLN SEQRES 13 A 410 ASN SER GLY ARG ALA GLN ILE ARG VAL PHE ASP TYR ASP SEQRES 14 A 410 GLN LEU PRO GLN ASN GLY VAL PRO PHE VAL SER GLN TYR SEQRES 15 A 410 GLY ARG VAL LEU GLY TYR GLY LEU ARG ASN ASP VAL GLY SEQRES 16 A 410 ILE THR GLU ASP ARG ALA GLY ASN ILE HIS SER ILE GLU SEQRES 17 A 410 ASN SER LEU ASP ASN ALA TYR ARG MET VAL ASN GLY GLN SEQRES 18 A 410 ARG ARG ASP ILE HIS THR ASN ASN PRO ALA GLU LYS VAL SEQRES 19 A 410 TYR ASN LEU GLY ASP PRO SER ASN PRO ARG ALA ILE PHE SEQRES 20 A 410 GLY GLY TYR PRO ASP CYS TYR THR VAL TRP GLU PRO SER SEQRES 21 A 410 ASP PHE THR ASP SER PRO LYS GLN PRO GLY ASP TRP PHE SEQRES 22 A 410 THR GLN ASP ASN SER GLY GLN TYR THR ASP ALA TRP CYS SEQRES 23 A 410 ASN ALA ASN ALA VAL LYS PRO THR LEU LEU LEU PRO PRO SEQRES 24 A 410 HIS THR ALA PRO LEU ASP MET LYS PHE GLY LEU GLY ASN SEQRES 25 A 410 ASP THR ASN LEU TYR VAL ALA LEU HIS GLY SER TRP ASN SEQRES 26 A 410 ARG GLN PRO PRO GLN GLY TYR LYS VAL VAL VAL VAL PRO SEQRES 27 A 410 GLY GLN TYR SER ALA SER GLY GLU TRP SER PRO THR ALA SEQRES 28 A 410 PRO LEU ALA GLN SER ARG THR ALA TRP SER ASP LEU LEU SEQRES 29 A 410 THR ASN ARG ASN GLU ASN GLN CYS SER GLY PHE GLY ASN SEQRES 30 A 410 ALA ASN CYS PHE ARG PRO VAL GLY LEU VAL TRP SER ALA SEQRES 31 A 410 ASP GLY GLN ASN LEU TYR VAL SER SER ASP THR SER GLY SEQRES 32 A 410 GLU VAL PHE ILE ILE LYS ARG SEQRES 1 B 410 THR PHE VAL SER CYS PRO GLY ALA PRO GLN PRO ARG TYR SEQRES 2 B 410 GLN MET ASN VAL ALA ASN GLY PHE ARG VAL ALA PRO VAL SEQRES 3 B 410 LEU GLY GLY LEU THR MET PRO ARG GLY ILE THR LEU ASP SEQRES 4 B 410 THR ARG GLY ASN LEU LEU VAL VAL GLU ARG GLY ARG GLY SEQRES 5 B 410 LEU THR GLY HIS THR LEU ASP ALA ASN GLY CYS VAL THR SEQRES 6 B 410 SER SER LYS VAL VAL ILE GLN ASP THR GLN ILE ASN HIS SEQRES 7 B 410 GLY ILE ASP VAL HIS PRO SER GLY ARG ARG ILE ILE ALA SEQRES 8 B 410 SER SER GLY ASP ILE ALA TRP SER TRP ASP TYR ASP PRO SEQRES 9 B 410 ALA THR MET THR ALA THR ASN ARG ARG THR LEU VAL THR SEQRES 10 B 410 GLY MET ASN ASN PHE TYR HIS PHE THR ARG THR VAL HIS SEQRES 11 B 410 ILE SER ARG LYS TYR PRO ASN LEU PHE ALA LEU ASN VAL SEQRES 12 B 410 GLY SER ASP GLY ASN ILE ASP VAL PRO THR ARG GLN GLN SEQRES 13 B 410 ASN SER GLY ARG ALA GLN ILE ARG VAL PHE ASP TYR ASP SEQRES 14 B 410 GLN LEU PRO GLN ASN GLY VAL PRO PHE VAL SER GLN TYR SEQRES 15 B 410 GLY ARG VAL LEU GLY TYR GLY LEU ARG ASN ASP VAL GLY SEQRES 16 B 410 ILE THR GLU ASP ARG ALA GLY ASN ILE HIS SER ILE GLU SEQRES 17 B 410 ASN SER LEU ASP ASN ALA TYR ARG MET VAL ASN GLY GLN SEQRES 18 B 410 ARG ARG ASP ILE HIS THR ASN ASN PRO ALA GLU LYS VAL SEQRES 19 B 410 TYR ASN LEU GLY ASP PRO SER ASN PRO ARG ALA ILE PHE SEQRES 20 B 410 GLY GLY TYR PRO ASP CYS TYR THR VAL TRP GLU PRO SER SEQRES 21 B 410 ASP PHE THR ASP SER PRO LYS GLN PRO GLY ASP TRP PHE SEQRES 22 B 410 THR GLN ASP ASN SER GLY GLN TYR THR ASP ALA TRP CYS SEQRES 23 B 410 ASN ALA ASN ALA VAL LYS PRO THR LEU LEU LEU PRO PRO SEQRES 24 B 410 HIS THR ALA PRO LEU ASP MET LYS PHE GLY LEU GLY ASN SEQRES 25 B 410 ASP THR ASN LEU TYR VAL ALA LEU HIS GLY SER TRP ASN SEQRES 26 B 410 ARG GLN PRO PRO GLN GLY TYR LYS VAL VAL VAL VAL PRO SEQRES 27 B 410 GLY GLN TYR SER ALA SER GLY GLU TRP SER PRO THR ALA SEQRES 28 B 410 PRO LEU ALA GLN SER ARG THR ALA TRP SER ASP LEU LEU SEQRES 29 B 410 THR ASN ARG ASN GLU ASN GLN CYS SER GLY PHE GLY ASN SEQRES 30 B 410 ALA ASN CYS PHE ARG PRO VAL GLY LEU VAL TRP SER ALA SEQRES 31 B 410 ASP GLY GLN ASN LEU TYR VAL SER SER ASP THR SER GLY SEQRES 32 B 410 GLU VAL PHE ILE ILE LYS ARG HET CA A 701 1 HET PQQ A 702 24 HET EDO A 703 4 HET EDO A 704 4 HET EDO A 705 4 HET EDO A 706 4 HET EDO A 707 4 HET EDO A 708 4 HET ACT A 709 4 HET ACT A 710 4 HET NAG B 701 14 HET CA B 702 1 HET PQQ B 703 24 HET EDO B 704 4 HET EDO B 705 4 HET EDO B 706 4 HET EDO B 707 4 HET EDO B 708 4 HETNAM CA CALCIUM ION HETNAM PQQ PYRROLOQUINOLINE QUINONE HETNAM EDO 1,2-ETHANEDIOL HETNAM ACT ACETATE ION HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETSYN EDO ETHYLENE GLYCOL 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 FORMUL 3 CA 2(CA 2+) FORMUL 4 PQQ 2(C14 H6 N2 O8) FORMUL 5 EDO 11(C2 H6 O2) FORMUL 11 ACT 2(C2 H3 O2 1-) FORMUL 13 NAG C8 H15 N O6 FORMUL 21 HOH *1520(H2 O) HELIX 1 AA1 ASP A 389 GLY A 398 5 10 HELIX 2 AA2 ASP A 408 LEU A 410 5 3 HELIX 3 AA3 GLU A 497 PHE A 501 5 5 HELIX 4 AA4 THR A 521 ALA A 529 1 9 HELIX 5 AA5 PRO A 591 ALA A 598 5 8 HELIX 6 AA6 ASN A 607 CYS A 611 5 5 HELIX 7 AA7 ASP B 389 GLY B 398 5 10 HELIX 8 AA8 ASP B 408 LEU B 410 5 3 HELIX 9 AA9 GLU B 497 PHE B 501 5 5 HELIX 10 AB1 THR B 521 ALA B 529 1 9 HELIX 11 AB2 PRO B 591 ALA B 598 5 8 HELIX 12 AB3 ASN B 607 CYS B 611 5 5 SHEET 1 AA1 5 ASN A 255 VAL A 256 0 SHEET 2 AA1 5 SER A 600 THR A 604 -1 O THR A 604 N ASN A 255 SHEET 3 AA1 5 LYS A 572 VAL A 576 -1 N VAL A 573 O LEU A 602 SHEET 4 AA1 5 LEU A 555 LEU A 559 -1 N LEU A 559 O LYS A 572 SHEET 5 AA1 5 PRO A 542 PHE A 547 -1 N LYS A 546 O TYR A 556 SHEET 1 AA2 4 ARG A 261 LEU A 266 0 SHEET 2 AA2 4 GLU A 643 LYS A 648 -1 O VAL A 644 N VAL A 265 SHEET 3 AA2 4 ASN A 633 SER A 638 -1 N VAL A 636 O PHE A 645 SHEET 4 AA2 4 PRO A 622 TRP A 627 -1 N VAL A 626 O TYR A 635 SHEET 1 AA3 4 PRO A 272 LEU A 277 0 SHEET 2 AA3 4 LEU A 283 GLU A 287 -1 O VAL A 286 N ARG A 273 SHEET 3 AA3 4 GLY A 291 LEU A 297 -1 O GLY A 291 N GLU A 287 SHEET 4 AA3 4 VAL A 303 GLN A 311 -1 O THR A 304 N THR A 296 SHEET 1 AA4 5 ILE A 319 VAL A 321 0 SHEET 2 AA4 5 ARG A 327 SER A 331 -1 O ILE A 329 N ASP A 320 SHEET 3 AA4 5 ALA A 336 ASP A 342 -1 O TRP A 337 N ALA A 330 SHEET 4 AA4 5 THR A 347 THR A 356 -1 O LEU A 354 N ALA A 336 SHEET 5 AA4 5 VAL A 415 PRO A 416 1 O VAL A 415 N THR A 356 SHEET 1 AA5 5 VAL A 368 ILE A 370 0 SHEET 2 AA5 5 LEU A 377 VAL A 382 -1 O ALA A 379 N HIS A 369 SHEET 3 AA5 5 GLN A 401 ASP A 406 -1 O PHE A 405 N PHE A 378 SHEET 4 AA5 5 ARG A 423 TYR A 427 -1 O ARG A 423 N VAL A 404 SHEET 5 AA5 5 ILE A 485 PHE A 486 1 O ILE A 485 N TYR A 427 SHEET 1 AA6 4 GLY A 434 GLU A 437 0 SHEET 2 AA6 4 ILE A 443 GLU A 447 -1 O HIS A 444 N THR A 436 SHEET 3 AA6 4 GLU A 471 GLY A 477 -1 O LYS A 472 N GLU A 447 SHEET 4 AA6 4 LEU A 534 LEU A 536 -1 O LEU A 536 N GLU A 471 SHEET 1 AA7 2 TYR A 454 VAL A 457 0 SHEET 2 AA7 2 GLN A 460 ASP A 463 -1 O GLN A 460 N VAL A 457 SHEET 1 AA8 2 TYR A 493 THR A 494 0 SHEET 2 AA8 2 TRP A 511 PHE A 512 -1 O PHE A 512 N TYR A 493 SHEET 1 AA9 2 GLY A 578 TYR A 580 0 SHEET 2 AA9 2 TRP A 586 PRO A 588 -1 O SER A 587 N GLN A 579 SHEET 1 AB1 5 ASN B 255 VAL B 256 0 SHEET 2 AB1 5 SER B 600 THR B 604 -1 O THR B 604 N ASN B 255 SHEET 3 AB1 5 LYS B 572 VAL B 576 -1 N VAL B 573 O LEU B 602 SHEET 4 AB1 5 LEU B 555 LEU B 559 -1 N LEU B 559 O LYS B 572 SHEET 5 AB1 5 PRO B 542 PHE B 547 -1 N LYS B 546 O TYR B 556 SHEET 1 AB2 4 ARG B 261 LEU B 266 0 SHEET 2 AB2 4 GLU B 643 LYS B 648 -1 O VAL B 644 N VAL B 265 SHEET 3 AB2 4 ASN B 633 SER B 638 -1 N VAL B 636 O PHE B 645 SHEET 4 AB2 4 PRO B 622 TRP B 627 -1 N VAL B 626 O TYR B 635 SHEET 1 AB3 4 PRO B 272 LEU B 277 0 SHEET 2 AB3 4 LEU B 283 GLU B 287 -1 O LEU B 284 N THR B 276 SHEET 3 AB3 4 GLY B 291 LEU B 297 -1 O GLY B 291 N GLU B 287 SHEET 4 AB3 4 VAL B 303 GLN B 311 -1 O LYS B 307 N GLY B 294 SHEET 1 AB4 5 ILE B 319 VAL B 321 0 SHEET 2 AB4 5 ARG B 327 SER B 331 -1 O ILE B 329 N ASP B 320 SHEET 3 AB4 5 ALA B 336 ASP B 342 -1 O TRP B 337 N ALA B 330 SHEET 4 AB4 5 THR B 347 THR B 356 -1 O LEU B 354 N ALA B 336 SHEET 5 AB4 5 VAL B 415 PRO B 416 1 O VAL B 415 N THR B 356 SHEET 1 AB5 5 VAL B 368 ILE B 370 0 SHEET 2 AB5 5 LEU B 377 VAL B 382 -1 O ALA B 379 N HIS B 369 SHEET 3 AB5 5 GLN B 401 ASP B 406 -1 O PHE B 405 N PHE B 378 SHEET 4 AB5 5 GLY B 422 TYR B 427 -1 O ARG B 423 N VAL B 404 SHEET 5 AB5 5 ILE B 485 PHE B 486 1 O ILE B 485 N TYR B 427 SHEET 1 AB6 4 GLY B 434 GLU B 437 0 SHEET 2 AB6 4 ILE B 443 GLU B 447 -1 O HIS B 444 N THR B 436 SHEET 3 AB6 4 GLU B 471 GLY B 477 -1 O LEU B 476 N ILE B 443 SHEET 4 AB6 4 LEU B 534 LEU B 536 -1 O LEU B 536 N GLU B 471 SHEET 1 AB7 2 TYR B 454 VAL B 457 0 SHEET 2 AB7 2 GLN B 460 ASP B 463 -1 O GLN B 460 N VAL B 457 SHEET 1 AB8 2 TYR B 493 THR B 494 0 SHEET 2 AB8 2 TRP B 511 PHE B 512 -1 O PHE B 512 N TYR B 493 SHEET 1 AB9 2 GLY B 578 TYR B 580 0 SHEET 2 AB9 2 TRP B 586 PRO B 588 -1 O SER B 587 N GLN B 579 SSBOND 1 CYS A 244 CYS A 302 1555 1555 2.11 SSBOND 2 CYS A 492 CYS A 525 1555 1555 2.06 SSBOND 3 CYS A 611 CYS A 619 1555 1555 2.02 SSBOND 4 CYS B 244 CYS B 302 1555 1555 2.06 SSBOND 5 CYS B 492 CYS B 525 1555 1555 2.06 SSBOND 6 CYS B 611 CYS B 619 1555 1555 2.04 LINK ND2 ASN B 551 C1 NAG B 701 1555 1555 1.44 LINK O SER A 449 CA CA A 701 1555 1555 2.56 LINK OD1 ASP A 451 CA CA A 701 1555 1555 2.31 LINK CA CA A 701 O5 PQQ A 702 1555 1555 2.45 LINK CA CA A 701 O7A PQQ A 702 1555 1555 2.49 LINK CA CA A 701 O HOH A 845 1555 1555 2.37 LINK CA CA A 701 O HOH A1093 1555 1555 2.46 LINK O SER B 449 CA CA B 702 1555 1555 2.58 LINK OD1 ASP B 451 CA CA B 702 1555 1555 2.33 LINK CA CA B 702 O7B PQQ B 703 1555 1555 2.49 LINK CA CA B 702 O5 PQQ B 703 1555 1555 2.44 LINK CA CA B 702 O HOH B 824 1555 1555 2.38 LINK CA CA B 702 O HOH B1090 1555 1555 2.45 CISPEP 1 ASN A 468 PRO A 469 0 -5.58 CISPEP 2 TYR A 489 PRO A 490 0 14.03 CISPEP 3 GLN A 566 PRO A 567 0 -2.48 CISPEP 4 ASN B 468 PRO B 469 0 -6.22 CISPEP 5 TYR B 489 PRO B 490 0 11.35 CISPEP 6 GLN B 566 PRO B 567 0 -3.96 CRYST1 85.330 95.638 106.204 90.00 90.00 90.00 P 21 21 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 0.011719 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010456 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009416 0.00000