HEADER OXIDOREDUCTASE 07-NOV-25 9T6P TITLE HIGHER-DOSE (283.1 KGY) STRUCTURE OF COPPER-CONTAINING NITRITE TITLE 2 REDUCTASE FROM ACHROMOBACTER CYCLOCLASTES AT ROOM TEMPERATURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: COPPER-CONTAINING NITRITE REDUCTASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CU-NIR; COMPND 5 EC: 1.7.2.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ACHROMOBACTER CYCLOCLASTES; SOURCE 3 ORGANISM_TAXID: 223; SOURCE 4 GENE: NIRK; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NIR, CU-NIR, RADIATION DAMAGE, NITRITE METABOLISM, ROOM-TEMPERATURE KEYWDS 2 CRYSTALLOGRAPHY, METALLOPROTEINS, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR N.CARAMELLO,S.L.ROSE,S.ENGILBERGE,A.ROYANT REVDAT 1 04-MAR-26 9T6P 0 JRNL AUTH N.CARAMELLO,S.L.ROSE,E.MATHIEU,L.PETIT,I.TEWS,S.ENGILBERGE, JRNL AUTH 2 A.ROYANT JRNL TITL COUPLED ON-LINE IN CRYSTALLO UV-VIS ABSORPTION SPECTROSCOPY JRNL TITL 2 AND X-RAY CRYSTALLOGRAPHY TO COMPARE SPECIFIC RADIATION JRNL TITL 3 DAMAGE IN METAL-CONTAINING PROTEINS AT ROOM VERSUS CRYOGENIC JRNL TITL 4 TEMPERATURE. JRNL REF ACTA CRYSTALLOGR D STRUCT 2026 JRNL REF 2 BIOL JRNL REFN ISSN 2059-7983 JRNL PMID 41641581 JRNL DOI 10.1107/S2059798326000690 REMARK 2 REMARK 2 RESOLUTION. 2.01 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0430 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) : 2.01 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.11 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 20270 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 : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.953 REMARK 3 FREE R VALUE TEST SET COUNT : 1004 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) : 2.01 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.06 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1369 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.84 REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE SET COUNT : 79 REMARK 3 BIN FREE R VALUE : 0.3200 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2538 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 7 REMARK 3 SOLVENT ATOMS : 105 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.19 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.32 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.182 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.161 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.152 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.066 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.973 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2687 ; 0.007 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 2457 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3677 ; 1.697 ; 1.816 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5668 ; 0.812 ; 1.743 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 343 ; 8.251 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 10 ; 9.411 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 395 ;14.083 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 407 ; 0.075 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3181 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 587 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 410 ; 0.197 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 90 ; 0.206 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1267 ; 0.177 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 124 ; 0.150 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.130 ; 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): 1363 ; 2.372 ; 3.019 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1363 ; 2.370 ; 3.019 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1706 ; 3.513 ; 5.418 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1707 ; 3.513 ; 5.421 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1324 ; 3.258 ; 3.330 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1321 ; 3.214 ; 3.322 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1970 ; 4.957 ; 5.961 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1965 ; 4.945 ; 5.948 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 : 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 9T6P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-NOV-25. REMARK 100 THE DEPOSITION ID IS D_1292151993. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-MAY-25 REMARK 200 TEMPERATURE (KELVIN) : 293 REMARK 200 PH : 4.75 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM07 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS JAN 19, 2025 (BUILT REMARK 200 20250430) REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.8.2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20090 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.016 REMARK 200 RESOLUTION RANGE LOW (A) : 29.117 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 11.20 REMARK 200 R MERGE (I) : 0.40200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.02 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 11.40 REMARK 200 R MERGE FOR SHELL (I) : 3.65000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC 5.8.0430 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: 40.52 REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 33.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS WERE GROWN USING THE VAPOR REMARK 280 DIFFUSION HANGING DROP METHOD WITH A PROTEIN CONCENTRATION OF 10 REMARK 280 MG/ML. THE RESERVOIR SOLUTION CONSISTED OF 1.6 M AMMONIUM REMARK 280 SULFATE AND 0.1 M SODIUM ACETATE (PH 4.75)., VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 3 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 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+1/2 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 48.27100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.27100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 48.27100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.27100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 48.27100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 48.27100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 48.27100 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 48.27100 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 48.27100 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 48.27100 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 48.27100 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 48.27100 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 48.27100 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 48.27100 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 48.27100 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 48.27100 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 48.27100 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 48.27100 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC 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 350 BIOMT1 2 0.000000 0.000000 -1.000000 48.27100 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 1.000000 0.000000 48.27100 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 0.000000 1.000000 -48.27100 REMARK 350 BIOMT3 3 -1.000000 0.000000 0.000000 48.27100 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 A 705 LIES ON A SPECIAL POSITION. 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 MET A -37 REMARK 465 THR A -36 REMARK 465 GLU A -35 REMARK 465 GLN A -34 REMARK 465 LEU A -33 REMARK 465 GLN A -32 REMARK 465 MET A -31 REMARK 465 THR A -30 REMARK 465 ARG A -29 REMARK 465 ARG A -28 REMARK 465 THR A -27 REMARK 465 MET A -26 REMARK 465 LEU A -25 REMARK 465 ALA A -24 REMARK 465 GLY A -23 REMARK 465 ALA A -22 REMARK 465 ALA A -21 REMARK 465 LEU A -20 REMARK 465 ALA A -19 REMARK 465 GLY A -18 REMARK 465 ALA A -17 REMARK 465 VAL A -16 REMARK 465 ALA A -15 REMARK 465 PRO A -14 REMARK 465 LEU A -13 REMARK 465 LEU A -12 REMARK 465 HIS A -11 REMARK 465 THR A -10 REMARK 465 ALA A -9 REMARK 465 GLN A -8 REMARK 465 ALA A -7 REMARK 465 HIS A -6 REMARK 465 ALA A -5 REMARK 465 ALA A -4 REMARK 465 GLY A -3 REMARK 465 ALA A -2 REMARK 465 ALA A -1 REMARK 465 ALA A 0 REMARK 465 ALA A 1 REMARK 465 ALA A 2 REMARK 465 GLY A 3 REMARK 465 ALA A 4 REMARK 465 ALA A 5 REMARK 465 PRO A 6 REMARK 465 VAL A 7 REMARK 465 SER A 339 REMARK 465 MET A 340 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 16 CG CD CE NZ REMARK 470 ARG A 54 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 195 CG CD CE NZ REMARK 470 GLU A 197 CG CD OE1 OE2 REMARK 470 ARG A 296 NE CZ NH1 NH2 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 LYS A 163 CD - CE - NZ ANGL. DEV. = -18.7 DEGREES REMARK 500 LYS A 163 CD - CE - NZ ANGL. DEV. = -21.1 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 ALA A 137 68.95 -159.68 REMARK 500 MET A 141 29.92 -144.00 REMARK 500 GLU A 197 49.59 -161.56 REMARK 500 THR A 198 125.18 91.94 REMARK 500 LEU A 227 46.52 -104.27 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 HIS A 306 ASN A 307 143.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 84 0.07 SIDE CHAIN REMARK 500 ARG A 159 0.08 SIDE CHAIN 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 501 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 95 ND1 REMARK 620 2 CYS A 136 SG 134.2 REMARK 620 3 HIS A 145 ND1 101.7 98.9 REMARK 620 4 MET A 150 SD 87.5 111.4 127.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 502 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 100 NE2 REMARK 620 2 HIS A 135 NE2 112.9 REMARK 620 3 HIS A 306 NE2 75.7 101.9 REMARK 620 4 HOH A 685 O 134.6 89.5 140.0 REMARK 620 N 1 2 3 DBREF 9T6P A -37 340 UNP P25006 NIR_ACHCY 1 378 SEQADV 9T6P GLN A 204 UNP P25006 GLU 242 CONFLICT SEQRES 1 A 378 MET THR GLU GLN LEU GLN MET THR ARG ARG THR MET LEU SEQRES 2 A 378 ALA GLY ALA ALA LEU ALA GLY ALA VAL ALA PRO LEU LEU SEQRES 3 A 378 HIS THR ALA GLN ALA HIS ALA ALA GLY ALA ALA ALA ALA SEQRES 4 A 378 ALA GLY ALA ALA PRO VAL ASP ILE SER THR LEU PRO ARG SEQRES 5 A 378 VAL LYS VAL ASP LEU VAL LYS PRO PRO PHE VAL HIS ALA SEQRES 6 A 378 HIS ASP GLN VAL ALA LYS THR GLY PRO ARG VAL VAL GLU SEQRES 7 A 378 PHE THR MET THR ILE GLU GLU LYS LYS LEU VAL ILE ASP SEQRES 8 A 378 ARG GLU GLY THR GLU ILE HIS ALA MET THR PHE ASN GLY SEQRES 9 A 378 SER VAL PRO GLY PRO LEU MET VAL VAL HIS GLU ASN ASP SEQRES 10 A 378 TYR VAL GLU LEU ARG LEU ILE ASN PRO ASP THR ASN THR SEQRES 11 A 378 LEU LEU HIS ASN ILE ASP PHE HIS ALA ALA THR GLY ALA SEQRES 12 A 378 LEU GLY GLY GLY ALA LEU THR GLN VAL ASN PRO GLY GLU SEQRES 13 A 378 GLU THR THR LEU ARG PHE LYS ALA THR LYS PRO GLY VAL SEQRES 14 A 378 PHE VAL TYR HIS CYS ALA PRO GLU GLY MET VAL PRO TRP SEQRES 15 A 378 HIS VAL THR SER GLY MET ASN GLY ALA ILE MET VAL LEU SEQRES 16 A 378 PRO ARG ASP GLY LEU LYS ASP GLU LYS GLY GLN PRO LEU SEQRES 17 A 378 THR TYR ASP LYS ILE TYR TYR VAL GLY GLU GLN ASP PHE SEQRES 18 A 378 TYR VAL PRO LYS ASP GLU ALA GLY ASN TYR LYS LYS TYR SEQRES 19 A 378 GLU THR PRO GLY GLU ALA TYR GLN ASP ALA VAL LYS ALA SEQRES 20 A 378 MET ARG THR LEU THR PRO THR HIS ILE VAL PHE ASN GLY SEQRES 21 A 378 ALA VAL GLY ALA LEU THR GLY ASP HIS ALA LEU THR ALA SEQRES 22 A 378 ALA VAL GLY GLU ARG VAL LEU VAL VAL HIS SER GLN ALA SEQRES 23 A 378 ASN ARG ASP THR ARG PRO HIS LEU ILE GLY GLY HIS GLY SEQRES 24 A 378 ASP TYR VAL TRP ALA THR GLY LYS PHE ARG ASN PRO PRO SEQRES 25 A 378 ASP LEU ASP GLN GLU THR TRP LEU ILE PRO GLY GLY THR SEQRES 26 A 378 ALA GLY ALA ALA PHE TYR THR PHE ARG GLN PRO GLY VAL SEQRES 27 A 378 TYR ALA TYR VAL ASN HIS ASN LEU ILE GLU ALA PHE GLU SEQRES 28 A 378 LEU GLY ALA ALA GLY HIS PHE LYS VAL THR GLY GLU TRP SEQRES 29 A 378 ASN ASP ASP LEU MET THR SER VAL VAL LYS PRO ALA SER SEQRES 30 A 378 MET HET CU A 501 1 HET CU A 502 1 HET SO4 A 503 5 HETNAM CU COPPER (II) ION HETNAM SO4 SULFATE ION FORMUL 2 CU 2(CU 2+) FORMUL 4 SO4 O4 S 2- FORMUL 5 HOH *105(H2 O) HELIX 1 AA1 ASP A 8 LEU A 12 5 5 HELIX 2 AA2 GLY A 104 THR A 112 5 9 HELIX 3 AA3 MET A 141 THR A 147 1 7 HELIX 4 AA4 PRO A 199 GLU A 201 5 3 HELIX 5 AA5 ALA A 202 THR A 212 1 11 HELIX 6 AA6 THR A 228 ALA A 232 5 5 HELIX 7 AA7 ASN A 307 GLU A 313 1 7 SHEET 1 AA1 3 ARG A 14 LYS A 16 0 SHEET 2 AA1 3 VAL A 38 VAL A 51 1 O GLU A 40 N VAL A 15 SHEET 3 AA1 3 GLU A 58 PHE A 64 -1 O ILE A 59 N LEU A 50 SHEET 1 AA2 4 ARG A 14 LYS A 16 0 SHEET 2 AA2 4 VAL A 38 VAL A 51 1 O GLU A 40 N VAL A 15 SHEET 3 AA2 4 TYR A 80 ASN A 87 1 O TYR A 80 N VAL A 39 SHEET 4 AA2 4 GLU A 118 LYS A 125 -1 O PHE A 124 N VAL A 81 SHEET 1 AA3 4 LEU A 72 HIS A 76 0 SHEET 2 AA3 4 ASN A 151 LEU A 157 1 O MET A 155 N MET A 73 SHEET 3 AA3 4 GLY A 130 HIS A 135 -1 N GLY A 130 O VAL A 156 SHEET 4 AA3 4 ASP A 98 PHE A 99 -1 N ASP A 98 O HIS A 135 SHEET 1 AA4 2 LEU A 162 LYS A 163 0 SHEET 2 AA4 2 PRO A 169 LEU A 170 -1 O LEU A 170 N LEU A 162 SHEET 1 AA5 6 HIS A 217 PHE A 220 0 SHEET 2 AA5 6 LYS A 174 PHE A 183 -1 N PHE A 183 O HIS A 217 SHEET 3 AA5 6 ARG A 240 GLN A 247 1 O VAL A 244 N VAL A 178 SHEET 4 AA5 6 THR A 287 THR A 294 -1 O TYR A 293 N VAL A 241 SHEET 5 AA5 6 GLY A 261 TRP A 265 -1 N TRP A 265 O ALA A 290 SHEET 6 AA5 6 ASP A 275 GLN A 278 -1 O ASP A 275 N VAL A 264 SHEET 1 AA6 4 LEU A 233 ALA A 236 0 SHEET 2 AA6 4 ALA A 317 THR A 323 1 O HIS A 319 N LEU A 233 SHEET 3 AA6 4 GLY A 299 ASN A 305 -1 N GLY A 299 O VAL A 322 SHEET 4 AA6 4 PRO A 254 ILE A 257 -1 N ILE A 257 O ALA A 302 LINK ND1 HIS A 95 CU CU A 501 1555 1555 2.10 LINK NE2 HIS A 100 CU CU A 502 1555 1555 2.04 LINK NE2 HIS A 135 CU CU A 502 1555 1555 2.04 LINK SG CYS A 136 CU CU A 501 1555 1555 2.23 LINK ND1 HIS A 145 CU CU A 501 1555 1555 2.00 LINK SD MET A 150 CU CU A 501 1555 1555 2.58 LINK NE2 HIS A 306 CU CU A 502 1555 7555 2.04 LINK CU CU A 502 O AHOH A 685 1555 1555 2.22 CISPEP 1 PRO A 22 PRO A 23 0 9.02 CISPEP 2 VAL A 68 PRO A 69 0 0.24 CRYST1 96.542 96.542 96.542 90.00 90.00 90.00 P 21 3 12 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 0.010358 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010358 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010358 0.00000 CONECT 683 2609 CONECT 731 2610 CONECT 982 2610 CONECT 988 2609 CONECT 1056 2609 CONECT 1090 2609 CONECT 2609 683 988 1056 1090 CONECT 2610 731 982 2700 CONECT 2611 2612 2613 2614 2615 CONECT 2612 2611 CONECT 2613 2611 CONECT 2614 2611 CONECT 2615 2611 CONECT 2700 2610 MASTER 444 0 3 7 23 0 0 6 2650 1 14 30 END