HEADER OXIDOREDUCTASE 06-DEC-24 9KWV TITLE STRUCTURE OF A D98N/C135A/G136A MUTANT COPPER-CONTAINING NITRITE TITLE 2 REDUCTASE IN COMPLEX 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 9KWV 1 JRNL REVDAT 1 11-JUN-25 9KWV 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. 0.99 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 0.99 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.960 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 232648 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.107 REMARK 3 R VALUE (WORKING SET) : 0.107 REMARK 3 FREE R VALUE : 0.117 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 11775 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 28.8400 - 3.0800 1.00 7384 374 0.1049 0.1173 REMARK 3 2 3.0700 - 2.4400 1.00 7416 359 0.0921 0.1018 REMARK 3 3 2.4400 - 2.1300 1.00 7322 378 0.0842 0.0968 REMARK 3 4 2.1300 - 1.9400 1.00 7389 378 0.0846 0.0956 REMARK 3 5 1.9400 - 1.8000 1.00 7394 383 0.0843 0.0957 REMARK 3 6 1.8000 - 1.6900 1.00 7344 422 0.0836 0.0907 REMARK 3 7 1.6900 - 1.6100 1.00 7344 352 0.0794 0.0891 REMARK 3 8 1.6100 - 1.5400 1.00 7311 425 0.0768 0.0919 REMARK 3 9 1.5400 - 1.4800 1.00 7406 348 0.0779 0.0952 REMARK 3 10 1.4800 - 1.4300 1.00 7369 420 0.0838 0.0954 REMARK 3 11 1.4300 - 1.3800 1.00 7343 406 0.0870 0.0970 REMARK 3 12 1.3800 - 1.3400 1.00 7378 395 0.0917 0.0978 REMARK 3 13 1.3400 - 1.3100 1.00 7393 361 0.1031 0.1137 REMARK 3 14 1.3100 - 1.2800 0.99 7304 395 0.1096 0.1219 REMARK 3 15 1.2800 - 1.2500 1.00 7298 413 0.1124 0.1145 REMARK 3 16 1.2500 - 1.2200 1.00 7376 429 0.1192 0.1316 REMARK 3 17 1.2200 - 1.2000 1.00 7411 365 0.1200 0.1293 REMARK 3 18 1.2000 - 1.1700 1.00 7281 416 0.1238 0.1213 REMARK 3 19 1.1700 - 1.1500 1.00 7323 438 0.1269 0.1336 REMARK 3 20 1.1500 - 1.1300 1.00 7401 373 0.1329 0.1386 REMARK 3 21 1.1300 - 1.1100 1.00 7350 423 0.1408 0.1510 REMARK 3 22 1.1100 - 1.1000 1.00 7408 386 0.1565 0.1673 REMARK 3 23 1.1000 - 1.0800 1.00 7314 384 0.1731 0.1772 REMARK 3 24 1.0800 - 1.0700 1.00 7416 381 0.1952 0.2021 REMARK 3 25 1.0700 - 1.0500 1.00 7334 458 0.2143 0.2238 REMARK 3 26 1.0500 - 1.0400 1.00 7305 419 0.2232 0.2334 REMARK 3 27 1.0400 - 1.0300 1.00 7449 398 0.2430 0.2230 REMARK 3 28 1.0300 - 1.0100 1.00 7321 409 0.2564 0.2495 REMARK 3 29 1.0100 - 1.0000 1.00 7376 355 0.2880 0.2833 REMARK 3 30 1.0000 - 0.9900 1.00 7413 332 0.3134 0.3085 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) : 0.080 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 12.950 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 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 : 0.006 2848 REMARK 3 ANGLE : 1.054 3921 REMARK 3 CHIRALITY : 0.089 414 REMARK 3 PLANARITY : 0.008 532 REMARK 3 DIHEDRAL : 9.329 403 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 9KWV 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_1300054474. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-JAN-23 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 : 232705 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.990 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 (%) : 99.8 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.99 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.01 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 1.55600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.000 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 (%): 59.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M ACETATE BUFFER PH 4.5, 5.5% 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 57.68550 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 33.30474 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 28.11200 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 57.68550 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 33.30474 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 28.11200 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 57.68550 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 33.30474 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 28.11200 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 66.60948 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 56.22400 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 66.60948 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 56.22400 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 66.60948 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 56.22400 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: 13010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -253.0 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 825 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 859 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 861 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 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 1.64 REMARK 500 NZ LYS A 155 O HOH A 501 1.86 REMARK 500 O HOH A 809 O HOH A 823 1.89 REMARK 500 O HOH A 779 O HOH A 787 1.91 REMARK 500 O HOH A 794 O HOH A 830 2.13 REMARK 500 O HOH A 766 O HOH A 833 2.18 REMARK 500 O HOH A 814 O HOH A 842 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 18 133.16 -39.79 REMARK 500 PRO A 203 102.69 -55.34 REMARK 500 SER A 242 78.72 -111.73 REMARK 500 ASP A 256 13.65 57.86 REMARK 500 SER A 274 1.77 80.56 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 293 144.71 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 871 DISTANCE = 5.84 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 406 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 42 NE2 REMARK 620 2 GLU A 53 OE1 39.4 REMARK 620 3 GLU A 53 OE2 41.5 2.3 REMARK 620 4 HIS A 83 ND1 98.6 78.0 77.7 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 105.1 REMARK 620 3 MET A 148 SD 100.3 154.6 REMARK 620 N 1 2 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 108.2 REMARK 620 3 HIS A 294 NE2 69.9 104.6 REMARK 620 4 NO2 A 404 O2 101.1 112.6 142.6 REMARK 620 5 NO2 A 404 N 135.2 97.4 138.1 34.2 REMARK 620 6 NO2 A 404 N 151.8 91.7 125.1 51.8 17.9 REMARK 620 7 NO2 A 404 N 141.4 102.4 124.1 44.2 14.2 11.3 REMARK 620 8 NO2 A 404 O2 107.3 110.0 143.9 6.3 27.9 45.6 38.3 REMARK 620 9 NO2 A 404 O1 162.6 88.6 111.0 67.2 33.8 16.0 23.6 61.1 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 408 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 103 NE2 REMARK 620 2 THR A 248 OG1 117.7 REMARK 620 3 VAL A 249 N 122.2 4.9 REMARK 620 4 VAL A 249 O 119.5 4.3 3.4 REMARK 620 N 1 2 3 DBREF 9KWV A 2 323 UNP A4IL26 A4IL26_GEOTN 31 352 SEQADV 9KWV MET A 1 UNP A4IL26 INITIATING METHIONINE SEQADV 9KWV ASN A 98 UNP A4IL26 ASP 127 ENGINEERED MUTATION SEQADV 9KWV ALA A 135 UNP A4IL26 CYS 164 ENGINEERED MUTATION SEQADV 9KWV ALA A 136 UNP A4IL26 GLY 165 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 ALA 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 1 HET MPD A 403 8 HET NO2 A 404 9 HET MPD A 405 8 HET CU A 406 1 HET CU A 407 1 HET CU A 408 1 HET CU A 409 1 HET CL A 410 1 HETNAM CU COPPER (II) ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM NO2 NITRITE ION HETNAM CL CHLORIDE ION FORMUL 2 CU 6(CU 2+) FORMUL 4 MPD 2(C6 H14 O2) FORMUL 5 NO2 N O2 1- FORMUL 11 CL CL 1- FORMUL 12 HOH *371(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 407 1555 1555 1.99 LINK NE2 HIS A 42 CU CU A 406 1555 1555 2.04 LINK OE1 GLU A 53 CU CU A 406 1555 6555 2.69 LINK OE2 GLU A 53 CU CU A 406 1555 6555 1.98 LINK ND1 HIS A 83 CU CU A 406 1555 1555 1.99 LINK ND1 HIS A 95 CU CU A 401 1555 1555 2.10 LINK NE2 HIS A 100 CU CU A 402 1555 1555 2.01 LINK NE2 HIS A 103 CU CU A 408 1555 3555 2.48 LINK NE2 HIS A 134 CU CU A 402 1555 1555 2.02 LINK ND1 HIS A 143 CU CU A 401 1555 1555 1.97 LINK SD MET A 148 CU CU A 401 1555 1555 2.16 LINK OD2 ASP A 167 CU CU A 409 1555 1555 2.23 LINK OG1 THR A 248 CU CU A 408 1555 1555 2.12 LINK N VAL A 249 CU CU A 408 1555 1555 2.00 LINK O VAL A 249 CU CU A 408 1555 1555 2.02 LINK NE2 HIS A 294 CU CU A 402 1555 2555 2.02 LINK CU CU A 402 O2 ANO2 A 404 1555 1555 2.20 LINK CU CU A 402 N ANO2 A 404 1555 1555 2.55 LINK CU CU A 402 N BNO2 A 404 1555 1555 2.16 LINK CU CU A 402 N CNO2 A 404 1555 1555 2.33 LINK CU CU A 402 O2 CNO2 A 404 1555 1555 1.90 LINK CU CU A 402 O1 ANO2 A 404 1555 1555 1.95 LINK CU CU A 402 CL D CL A 410 1555 1555 2.17 CISPEP 1 ALA A 69 PRO A 70 0 -11.14 CISPEP 2 LYS A 138 PRO A 139 0 -6.41 CISPEP 3 LYS A 138 PRO A 139 0 -5.84 CISPEP 4 GLY A 236 PRO A 237 0 19.39 CRYST1 115.371 115.371 84.336 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 0.008668 0.005004 0.000000 0.00000 SCALE2 0.000000 0.010009 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011857 0.00000 CONECT 395 5185 CONECT 457 5184 CONECT 1129 5184 CONECT 1344 5157 CONECT 1426 5158 CONECT 1993 5158 CONECT 2143 5157 CONECT 2210 5157 CONECT 2579 5187 CONECT 4138 5186 CONECT 4146 5186 CONECT 4149 5186 CONECT 5157 1344 2143 2210 CONECT 5158 1426 1993 5167 5168 CONECT 5158 5169 5170 5173 5175 CONECT 5158 5188 CONECT 5159 5160 CONECT 5160 5159 5161 5162 5163 CONECT 5161 5160 CONECT 5162 5160 CONECT 5163 5160 5164 CONECT 5164 5163 5165 5166 CONECT 5165 5164 CONECT 5166 5164 CONECT 5167 5158 5170 5173 CONECT 5168 5158 5171 5174 CONECT 5169 5158 5172 5175 CONECT 5170 5158 5167 CONECT 5171 5168 CONECT 5172 5169 CONECT 5173 5158 5167 CONECT 5174 5168 CONECT 5175 5158 5169 CONECT 5176 5177 CONECT 5177 5176 5178 5179 5180 CONECT 5178 5177 CONECT 5179 5177 CONECT 5180 5177 5181 CONECT 5181 5180 5182 5183 CONECT 5182 5181 CONECT 5183 5181 CONECT 5184 457 1129 CONECT 5185 395 CONECT 5186 4138 4146 4149 CONECT 5187 2579 CONECT 5188 5158 MASTER 395 0 10 7 22 0 0 6 2726 1 46 25 END