HEADER OXIDOREDUCTASE 06-DEC-24 9KWU TITLE D98N/C135A MUTANT OF A COPPER-CONTAINING NITRITE REDUCTASE IN COMPLEX TITLE 2 WITH NITRITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: COPPER-CONTAINING NITRITE REDUCTASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.7.2.1; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GEOBACILLUS THERMODENITRIFICANS (STRAIN NG80- SOURCE 3 2); SOURCE 4 ORGANISM_TAXID: 420246; SOURCE 5 GENE: NIRK, GTNG_0650; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS COPPER, DENITRIFICATION, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.FUKUDA,M.LINTULUOTO,Y.HIRANO,K.KUSAKA,T.INOUE,T.TAMADA REVDAT 2 02-JUL-25 9KWU 1 JRNL REVDAT 1 11-JUN-25 9KWU 0 JRNL AUTH Y.FUKUDA,M.LINTULUOTO,Y.HIRANO,K.KUSAKA,T.INOUE,T.TAMADA JRNL TITL STRUCTURAL BASIS OF CUPROENZYME NITRITE REDUCTION AT THE JRNL TITL 2 LEVEL OF A SINGLE HYDROGEN ATOM. JRNL REF J.BIOL.CHEM. V. 301 10290 2025 JRNL REFN ESSN 1083-351X JRNL PMID 40436316 JRNL DOI 10.1016/J.JBC.2025.110290 REMARK 2 REMARK 2 RESOLUTION. 1.12 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.22 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.970 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 3 NUMBER OF REFLECTIONS : 155413 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.103 REMARK 3 R VALUE (WORKING SET) : 0.103 REMARK 3 FREE R VALUE : 0.117 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 7719 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 32.2200 - 3.4800 0.92 4655 243 0.1055 0.1209 REMARK 3 2 3.4800 - 2.7600 0.94 4778 263 0.1017 0.1166 REMARK 3 3 2.7600 - 2.4100 0.95 4862 218 0.0976 0.1091 REMARK 3 4 2.4100 - 2.1900 0.94 4796 247 0.0897 0.1026 REMARK 3 5 2.1900 - 2.0400 0.94 4815 275 0.0893 0.0961 REMARK 3 6 2.0300 - 1.9200 0.94 4736 283 0.0871 0.1020 REMARK 3 7 1.9200 - 1.8200 0.94 4737 285 0.0801 0.0929 REMARK 3 8 1.8200 - 1.7400 0.95 4925 201 0.0769 0.0811 REMARK 3 9 1.7400 - 1.6700 0.94 4778 248 0.0757 0.0802 REMARK 3 10 1.6700 - 1.6200 0.94 4828 242 0.0817 0.0959 REMARK 3 11 1.6200 - 1.5600 0.95 4776 307 0.0797 0.0975 REMARK 3 12 1.5600 - 1.5200 0.95 4786 302 0.0800 0.0950 REMARK 3 13 1.5200 - 1.4800 0.96 4878 218 0.0804 0.1039 REMARK 3 14 1.4800 - 1.4400 0.96 4907 274 0.0826 0.1061 REMARK 3 15 1.4400 - 1.4100 0.97 5004 218 0.0862 0.1097 REMARK 3 16 1.4100 - 1.3800 0.98 4984 222 0.0942 0.1112 REMARK 3 17 1.3800 - 1.3500 0.98 5074 241 0.0986 0.1239 REMARK 3 18 1.3500 - 1.3300 0.98 4980 265 0.1225 0.1477 REMARK 3 19 1.3300 - 1.3000 0.99 5040 242 0.1362 0.1569 REMARK 3 20 1.3000 - 1.2800 0.99 5031 204 0.1311 0.1363 REMARK 3 21 1.2800 - 1.2600 0.99 5067 293 0.1251 0.1282 REMARK 3 22 1.2600 - 1.2400 0.99 4961 270 0.1222 0.1476 REMARK 3 23 1.2400 - 1.2200 0.99 5064 239 0.1262 0.1638 REMARK 3 24 1.2200 - 1.2100 0.99 5012 297 0.1321 0.1421 REMARK 3 25 1.2100 - 1.1900 0.99 5004 257 0.1485 0.1667 REMARK 3 26 1.1900 - 1.1700 0.99 5082 271 0.1666 0.1831 REMARK 3 27 1.1700 - 1.1600 0.99 4999 293 0.1897 0.2043 REMARK 3 28 1.1600 - 1.1500 0.99 5059 234 0.2198 0.2353 REMARK 3 29 1.1500 - 1.1300 0.99 4992 301 0.2631 0.2835 REMARK 3 30 1.1300 - 1.1200 0.99 5084 266 0.2964 0.3110 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 : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.115 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 10.557 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 9.61 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.30 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 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 : 0.007 2731 REMARK 3 ANGLE : 1.083 3758 REMARK 3 CHIRALITY : 0.090 398 REMARK 3 PLANARITY : 0.008 510 REMARK 3 DIHEDRAL : 9.480 385 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 9KWU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-DEC-24. REMARK 100 THE DEPOSITION ID IS D_1300054472. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-OCT-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL44XU 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 EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 155451 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.120 REMARK 200 RESOLUTION RANGE LOW (A) : 43.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.12 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.60800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 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: 4YSO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M ACETATE BUFFER PH 4.5, 5.0% REMARK 280 (W/V) PEG 4000, AND 75 MM CUSO4, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 57.66700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 33.29406 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 28.11067 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 57.66700 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 33.29406 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 28.11067 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 57.66700 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 33.29406 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 28.11067 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 66.58812 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 56.22133 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 66.58812 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 56.22133 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 66.58812 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 56.22133 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 TOTAL BURIED SURFACE AREA: 11710 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -142.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 A 837 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 855 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 879 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 881 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 1 REMARK 465 GLU A 2 REMARK 465 SER A 3 REMARK 465 LYS A 4 REMARK 465 ASN A 5 REMARK 465 LYS A 6 REMARK 465 THR A 7 REMARK 465 ALA A 8 REMARK 465 ALA A 9 REMARK 465 THR A 10 REMARK 465 GLN A 11 REMARK 465 GLN A 12 REMARK 465 SER A 13 REMARK 465 GLU A 14 REMARK 465 PRO A 15 REMARK 465 ASN A 16 REMARK 465 ASP A 316 REMARK 465 GLY A 317 REMARK 465 THR A 318 REMARK 465 GLU A 319 REMARK 465 THR A 320 REMARK 465 SER A 321 REMARK 465 GLY A 322 REMARK 465 HIS A 323 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 501 O HOH A 658 1.80 REMARK 500 NZ LYS A 155 O HOH A 501 1.87 REMARK 500 O HOH A 753 O HOH A 760 1.88 REMARK 500 O HOH A 771 O HOH A 786 2.04 REMARK 500 O HOH A 873 O HOH A 882 2.04 REMARK 500 O HOH A 777 O HOH A 798 2.19 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 ILE A 18 126.62 -21.63 REMARK 500 VAL A 92 -25.08 -140.21 REMARK 500 VAL A 92 -26.55 -142.27 REMARK 500 SER A 242 79.07 -110.98 REMARK 500 ASP A 256 12.71 59.02 REMARK 500 SER A 274 0.98 80.58 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 VAL A 292 THR A 293 144.13 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 A 895 DISTANCE = 5.81 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 CU A 407 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 42 NE2 REMARK 620 2 GLU A 53 OE1 37.5 REMARK 620 3 GLU A 53 OE2 39.6 2.3 REMARK 620 4 HIS A 83 ND1 96.2 76.6 76.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 401 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 95 ND1 REMARK 620 2 HIS A 143 ND1 96.3 REMARK 620 3 MET A 148 SD 105.2 152.3 REMARK 620 4 MET A 148 SD 104.6 158.7 20.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 402 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 100 NE2 REMARK 620 2 HIS A 134 NE2 109.1 REMARK 620 3 HIS A 294 NE2 66.1 96.5 REMARK 620 4 NO2 A 404 N 134.6 113.5 122.1 REMARK 620 5 NO2 A 404 O1 167.0 83.5 117.1 32.5 REMARK 620 6 NO2 A 404 O2 108.5 122.3 138.7 32.7 60.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 402 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 100 NE2 REMARK 620 2 HIS A 134 NE2 109.0 REMARK 620 3 HIS A 294 NE2 69.0 99.7 REMARK 620 4 NO2 A 404 N 143.1 97.6 131.9 REMARK 620 5 NO2 A 405 O1 88.9 80.7 156.9 70.2 REMARK 620 N 1 2 3 4 DBREF 9KWU A 2 323 UNP A4IL26 A4IL26_GEOTN 31 352 SEQADV 9KWU MET A 1 UNP A4IL26 INITIATING METHIONINE SEQADV 9KWU ASN A 98 UNP A4IL26 ASP 127 ENGINEERED MUTATION SEQADV 9KWU ALA A 135 UNP A4IL26 CYS 164 ENGINEERED MUTATION SEQRES 1 A 323 MET GLU SER LYS ASN LYS THR ALA ALA THR GLN GLN SER SEQRES 2 A 323 GLU PRO ASN VAL ILE ALA ALA HIS LYS GLY VAL ASN GLN SEQRES 3 A 323 ALA PRO VAL PRO LEU LYS MET GLU ARG VAL GLY PRO HIS SEQRES 4 A 323 ASP VAL HIS ILE GLU MET THR ALA GLN ILE THR ASP ILE SEQRES 5 A 323 GLU ILE ASP LYS GLY LYS ILE TYR LYS ALA TRP THR PHE SEQRES 6 A 323 ASN GLY GLN ALA PRO GLY PRO LEU VAL VAL VAL ASN GLU SEQRES 7 A 323 GLY ASP THR ILE HIS PHE THR LEU LYS ASN MET ASP PRO SEQRES 8 A 323 VAL VAL PRO HIS SER MET ASN PHE HIS ALA VAL HIS ALA SEQRES 9 A 323 SER PRO SER LYS ASP PHE ILE ASP VAL MET PRO ASN LYS SEQRES 10 A 323 SER GLY THR PHE THR TYR PRO ALA ASN LYS PRO GLY VAL SEQRES 11 A 323 PHE MET TYR HIS ALA GLY THR LYS PRO VAL LEU GLN HIS SEQRES 12 A 323 ILE ALA ASN GLY MET HIS GLY VAL ILE ILE VAL LYS PRO SEQRES 13 A 323 LYS ASN GLY TYR PRO THR ASP LYS GLU VAL ASP ARG GLU SEQRES 14 A 323 TYR VAL LEU ILE GLN ASN GLU TRP TYR LYS TYR ASN ASP SEQRES 15 A 323 MET ASN ASP PHE GLN ASN GLY VAL PRO SER TYR VAL VAL SEQRES 16 A 323 PHE SER SER LYS ALA LEU LYS PRO GLY ASP PRO ASN THR SEQRES 17 A 323 ASN GLY ASP THR PHE THR LEU LYS GLU LYS PRO LEU LEU SEQRES 18 A 323 ALA LYS VAL GLY GLU LYS ILE ARG LEU TYR ILE ASN ASN SEQRES 19 A 323 VAL GLY PRO ASN GLU VAL SER SER PHE HIS VAL VAL GLY SEQRES 20 A 323 THR VAL PHE ASP ASP VAL TYR LEU ASP GLY ASN PRO ASN SEQRES 21 A 323 ASN HIS LEU GLN GLY MET GLN THR VAL MET LEU PRO ALA SEQRES 22 A 323 SER GLY GLY ALA VAL VAL GLU PHE THR VAL THR ARG PRO SEQRES 23 A 323 GLY THR TYR PRO ILE VAL THR HIS GLN PHE ASN HIS ALA SEQRES 24 A 323 GLN LYS GLY ALA VAL ALA MET LEU LYS VAL THR GLU THR SEQRES 25 A 323 GLY GLU ASP ASP GLY THR GLU THR SER GLY HIS HET CU A 401 1 HET CU A 402 2 HET MPD A 403 8 HET NO2 A 404 6 HET NO2 A 405 3 HET CU A 406 1 HET CU A 407 1 HET CU A 408 1 HETNAM CU COPPER (II) ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM NO2 NITRITE ION FORMUL 2 CU 5(CU 2+) FORMUL 4 MPD C6 H14 O2 FORMUL 5 NO2 2(N O2 1-) FORMUL 10 HOH *395(H2 O) HELIX 1 AA1 ILE A 18 LYS A 22 5 5 HELIX 2 AA2 SER A 105 PHE A 110 1 6 HELIX 3 AA3 PRO A 139 ASN A 146 1 8 HELIX 4 AA4 THR A 162 VAL A 166 5 5 HELIX 5 AA5 ASP A 182 GLY A 189 1 8 HELIX 6 AA6 PHE A 213 LYS A 218 1 6 HELIX 7 AA7 GLN A 295 LYS A 301 1 7 SHEET 1 AA1 3 LYS A 32 GLY A 37 0 SHEET 2 AA1 3 ASP A 40 ASP A 55 -1 O HIS A 42 N GLU A 34 SHEET 3 AA1 3 LYS A 58 PHE A 65 -1 O TYR A 60 N ILE A 52 SHEET 1 AA2 4 LYS A 32 GLY A 37 0 SHEET 2 AA2 4 ASP A 40 ASP A 55 -1 O HIS A 42 N GLU A 34 SHEET 3 AA2 4 ASP A 80 ASN A 88 1 O THR A 85 N ILE A 43 SHEET 4 AA2 4 SER A 118 ALA A 125 -1 O PHE A 121 N PHE A 84 SHEET 1 AA3 4 VAL A 74 ASN A 77 0 SHEET 2 AA3 4 HIS A 149 LYS A 155 1 O ILE A 153 N VAL A 74 SHEET 3 AA3 4 GLY A 129 HIS A 134 -1 N GLY A 129 O VAL A 154 SHEET 4 AA3 4 ASN A 98 PHE A 99 -1 N ASN A 98 O HIS A 134 SHEET 1 AA4 6 TYR A 193 SER A 198 0 SHEET 2 AA4 6 ARG A 168 TRP A 177 -1 N ASN A 175 O VAL A 195 SHEET 3 AA4 6 LYS A 227 GLY A 236 1 O ARG A 229 N ARG A 168 SHEET 4 AA4 6 GLY A 276 THR A 282 -1 O PHE A 281 N ILE A 228 SHEET 5 AA4 6 PHE A 250 LEU A 255 -1 N TYR A 254 O VAL A 278 SHEET 6 AA4 6 HIS A 262 MET A 266 -1 O MET A 266 N PHE A 250 SHEET 1 AA5 5 LEU A 220 LYS A 223 0 SHEET 2 AA5 5 VAL A 304 THR A 310 1 O LYS A 308 N LEU A 220 SHEET 3 AA5 5 GLY A 287 THR A 293 -1 N GLY A 287 O VAL A 309 SHEET 4 AA5 5 SER A 241 VAL A 245 -1 N HIS A 244 O VAL A 292 SHEET 5 AA5 5 VAL A 269 LEU A 271 -1 O LEU A 271 N SER A 241 LINK NE2 HIS A 39 CU CU A 406 1555 1555 2.00 LINK NE2 HIS A 42 CU CU A 407 1555 1555 2.01 LINK OE1 GLU A 53 CU CU A 407 1555 6555 2.63 LINK OE2 GLU A 53 CU CU A 407 1555 6555 1.99 LINK ND1 HIS A 83 CU CU A 407 1555 1555 2.02 LINK ND1 HIS A 95 CU CU A 401 1555 1555 2.01 LINK NE2 HIS A 100 CU A CU A 402 1555 1555 2.10 LINK NE2 HIS A 100 CU B CU A 402 1555 1555 1.97 LINK NE2 HIS A 134 CU A CU A 402 1555 1555 2.01 LINK NE2 HIS A 134 CU B CU A 402 1555 1555 2.14 LINK ND1 HIS A 143 CU CU A 401 1555 1555 2.10 LINK SD AMET A 148 CU CU A 401 1555 1555 1.98 LINK SD BMET A 148 CU CU A 401 1555 1555 2.24 LINK OD2 ASP A 167 CU CU A 408 1555 1555 2.14 LINK NE2 HIS A 294 CU A CU A 402 1555 2555 2.07 LINK NE2 HIS A 294 CU B CU A 402 1555 2555 1.97 LINK CU A CU A 402 N ANO2 A 404 1555 1555 2.56 LINK CU A CU A 402 O1 ANO2 A 404 1555 1555 2.57 LINK CU A CU A 402 O2 ANO2 A 404 1555 1555 1.76 LINK CU B CU A 402 N BNO2 A 404 1555 1555 2.07 LINK CU B CU A 402 O1 BNO2 A 405 1555 1555 2.17 CISPEP 1 ALA A 69 PRO A 70 0 -11.05 CISPEP 2 LYS A 138 PRO A 139 0 -8.11 CISPEP 3 LYS A 138 PRO A 139 0 -2.63 CISPEP 4 GLY A 236 PRO A 237 0 17.80 CRYST1 115.334 115.334 84.332 90.00 90.00 120.00 H 3 9 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 0.008670 0.005006 0.000000 0.00000 SCALE2 0.000000 0.010012 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011858 0.00000 CONECT 310 4673 CONECT 361 4674 CONECT 1002 4674 CONECT 1205 4653 CONECT 1300 4654 4655 CONECT 1854 4654 4655 CONECT 1981 4653 CONECT 2054 4653 CONECT 2055 4653 CONECT 2343 4675 CONECT 4653 1205 1981 2054 2055 CONECT 4654 1300 1854 4664 4666 CONECT 4654 4668 CONECT 4655 1300 1854 4665 4671 CONECT 4656 4657 CONECT 4657 4656 4658 4659 4660 CONECT 4658 4657 CONECT 4659 4657 CONECT 4660 4657 4661 CONECT 4661 4660 4662 4663 CONECT 4662 4661 CONECT 4663 4661 CONECT 4664 4654 4666 4668 CONECT 4665 4655 4667 4669 CONECT 4666 4654 4664 CONECT 4667 4665 CONECT 4668 4654 4664 CONECT 4669 4665 CONECT 4670 4671 4672 CONECT 4671 4655 4670 CONECT 4672 4670 CONECT 4673 310 CONECT 4674 361 1002 CONECT 4675 2343 MASTER 396 0 8 7 22 0 0 6 2734 1 34 25 END