HEADER OXIDOREDUCTASE 06-DEC-24 9KWT TITLE STRUCTURE OF A COPPER-CONTAINING NITRITE REDUCTASE (D98N/G136A MUTANT) TITLE 2 FROM GEOBACILLUS THERMODENITRIFICANS 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 9KWT 1 JRNL REVDAT 1 11-JUN-25 9KWT 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. 0.96 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) : 0.96 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.11 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.960 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 254173 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.101 REMARK 3 R VALUE (WORKING SET) : 0.100 REMARK 3 FREE R VALUE : 0.107 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 12841 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 28.1100 - 2.9800 0.98 7943 416 0.1049 0.1096 REMARK 3 2 2.9800 - 2.3700 0.99 7993 406 0.0924 0.0934 REMARK 3 3 2.3700 - 2.0700 0.98 7899 448 0.0863 0.0937 REMARK 3 4 2.0700 - 1.8800 0.99 7998 424 0.0868 0.0884 REMARK 3 5 1.8800 - 1.7400 0.99 8007 426 0.0823 0.0839 REMARK 3 6 1.7400 - 1.6400 0.99 7996 426 0.0768 0.0936 REMARK 3 7 1.6400 - 1.5600 1.00 8029 449 0.0758 0.0906 REMARK 3 8 1.5600 - 1.4900 1.00 8064 416 0.0763 0.0819 REMARK 3 9 1.4900 - 1.4300 1.00 8064 395 0.0770 0.0954 REMARK 3 10 1.4300 - 1.3800 1.00 8078 391 0.0787 0.0824 REMARK 3 11 1.3800 - 1.3400 1.00 8065 415 0.0807 0.0914 REMARK 3 12 1.3400 - 1.3000 1.00 8070 438 0.0882 0.0915 REMARK 3 13 1.3000 - 1.2700 1.00 8029 452 0.0919 0.1014 REMARK 3 14 1.2700 - 1.2400 1.00 8108 382 0.0932 0.0982 REMARK 3 15 1.2400 - 1.2100 1.00 7981 465 0.0961 0.1150 REMARK 3 16 1.2100 - 1.1800 1.00 8062 475 0.0977 0.1018 REMARK 3 17 1.1800 - 1.1600 1.00 8008 468 0.0981 0.1071 REMARK 3 18 1.1600 - 1.1400 1.00 8145 383 0.1012 0.1068 REMARK 3 19 1.1400 - 1.1200 1.00 8023 437 0.1092 0.1061 REMARK 3 20 1.1200 - 1.1000 1.00 8027 445 0.1178 0.1230 REMARK 3 21 1.1000 - 1.0800 1.00 8081 439 0.1298 0.1398 REMARK 3 22 1.0800 - 1.0600 1.00 8074 415 0.1480 0.1585 REMARK 3 23 1.0600 - 1.0500 1.00 8057 436 0.1595 0.1515 REMARK 3 24 1.0500 - 1.0300 1.00 8077 429 0.1644 0.1617 REMARK 3 25 1.0300 - 1.0200 1.00 8056 437 0.1783 0.1820 REMARK 3 26 1.0200 - 1.0100 1.00 8083 418 0.1925 0.2047 REMARK 3 27 1.0100 - 0.9900 1.00 8113 440 0.2095 0.2316 REMARK 3 28 0.9900 - 0.9800 1.00 8037 432 0.2260 0.2318 REMARK 3 29 0.9800 - 0.9700 1.00 8044 413 0.2435 0.2690 REMARK 3 30 0.9700 - 0.9600 1.00 8121 425 0.2753 0.2656 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) : 10.540 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 8.19 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 2980 REMARK 3 ANGLE : 1.165 4105 REMARK 3 CHIRALITY : 0.089 433 REMARK 3 PLANARITY : 0.008 559 REMARK 3 DIHEDRAL : 7.879 421 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 9KWT 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_1300054473. 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 : 254215 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.960 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 (%) : 99.7 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.96 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 0.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : 1.12700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 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 (%): 62.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.25 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 57.56300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 33.23401 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 28.14333 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 57.56300 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 33.23401 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 28.14333 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 57.56300 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 33.23401 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 28.14333 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 66.46803 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 56.28667 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 66.46803 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 56.28667 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 66.46803 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 56.28667 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: 11940 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -250.0 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 867 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 908 LIES ON A SPECIAL POSITION. 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 HZ3 LYS A 308 OD1 ASP A 315 1.59 REMARK 500 O HOH A 737 O HOH A 809 1.92 REMARK 500 O HOH A 856 O HOH A 913 2.04 REMARK 500 O HOH A 729 O HOH A 898 2.11 REMARK 500 O HOH A 503 O HOH A 751 2.14 REMARK 500 O HOH A 913 O HOH A 920 2.16 REMARK 500 O HOH A 895 O HOH A 898 2.18 REMARK 500 NZ LYS A 308 OD1 ASP A 315 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LYS A 22 N - CA - CB ANGL. DEV. = -11.7 DEGREES REMARK 500 LYS A 22 CB - CG - CD ANGL. DEV. = 16.7 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 ASN A 25 89.86 -150.14 REMARK 500 VAL A 92 -21.80 -140.45 REMARK 500 VAL A 92 -33.85 -138.99 REMARK 500 LYS A 218 79.45 -118.49 REMARK 500 SER A 242 79.67 -112.44 REMARK 500 ASP A 256 13.03 58.56 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 293 144.63 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 920 DISTANCE = 5.88 ANGSTROMS REMARK 525 HOH A 921 DISTANCE = 6.34 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 37.7 REMARK 620 3 GLU A 53 OE2 39.8 2.3 REMARK 620 4 HIS A 83 ND1 95.2 76.1 75.8 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 CYS A 135 SG 138.1 REMARK 620 3 HIS A 143 ND1 101.6 104.0 REMARK 620 4 MET A 148 SD 82.9 113.3 116.8 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 106.5 REMARK 620 3 HIS A 294 NE2 69.6 107.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A 409 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 103 NE2 REMARK 620 2 THR A 248 OG1 118.5 REMARK 620 3 VAL A 249 N 122.9 4.8 REMARK 620 4 VAL A 249 O 120.2 4.3 3.4 REMARK 620 N 1 2 3 DBREF 9KWT A 16 315 UNP A4IL26 A4IL26_GEOTN 45 344 SEQADV 9KWT ASN A 98 UNP A4IL26 ASP 127 ENGINEERED MUTATION SEQADV 9KWT ALA A 136 UNP A4IL26 GLY 165 ENGINEERED MUTATION SEQRES 1 A 300 ASN VAL ILE ALA ALA HIS LYS GLY VAL ASN GLN ALA PRO SEQRES 2 A 300 VAL PRO LEU LYS MET GLU ARG VAL GLY PRO HIS ASP VAL SEQRES 3 A 300 HIS ILE GLU MET THR ALA GLN ILE THR ASP ILE GLU ILE SEQRES 4 A 300 ASP LYS GLY LYS ILE TYR LYS ALA TRP THR PHE ASN GLY SEQRES 5 A 300 GLN ALA PRO GLY PRO LEU VAL VAL VAL ASN GLU GLY ASP SEQRES 6 A 300 THR ILE HIS PHE THR LEU LYS ASN MET ASP PRO VAL VAL SEQRES 7 A 300 PRO HIS SER MET ASN PHE HIS ALA VAL HIS ALA SER PRO SEQRES 8 A 300 SER LYS ASP PHE ILE ASP VAL MET PRO ASN LYS SER GLY SEQRES 9 A 300 THR PHE THR TYR PRO ALA ASN LYS PRO GLY VAL PHE MET SEQRES 10 A 300 TYR HIS CYS ALA THR LYS PRO VAL LEU GLN HIS ILE ALA SEQRES 11 A 300 ASN GLY MET HIS GLY VAL ILE ILE VAL LYS PRO LYS ASN SEQRES 12 A 300 GLY TYR PRO THR ASP LYS GLU VAL ASP ARG GLU TYR VAL SEQRES 13 A 300 LEU ILE GLN ASN GLU TRP TYR LYS TYR ASN ASP MET ASN SEQRES 14 A 300 ASP PHE GLN ASN GLY VAL PRO SER TYR VAL VAL PHE SER SEQRES 15 A 300 SER LYS ALA LEU LYS PRO GLY ASP PRO ASN THR ASN GLY SEQRES 16 A 300 ASP THR PHE THR LEU LYS GLU LYS PRO LEU LEU ALA LYS SEQRES 17 A 300 VAL GLY GLU LYS ILE ARG LEU TYR ILE ASN ASN VAL GLY SEQRES 18 A 300 PRO ASN GLU VAL SER SER PHE HIS VAL VAL GLY THR VAL SEQRES 19 A 300 PHE ASP ASP VAL TYR LEU ASP GLY ASN PRO ASN ASN HIS SEQRES 20 A 300 LEU GLN GLY MET GLN THR VAL MET LEU PRO ALA SER GLY SEQRES 21 A 300 GLY ALA VAL VAL GLU PHE THR VAL THR ARG PRO GLY THR SEQRES 22 A 300 TYR PRO ILE VAL THR HIS GLN PHE ASN HIS ALA GLN LYS SEQRES 23 A 300 GLY ALA VAL ALA MET LEU LYS VAL THR GLU THR GLY GLU SEQRES 24 A 300 ASP HET CU A 401 1 HET CU A 402 1 HET CL A 403 1 HET MPD A 404 22 HET CU A 405 1 HET CU A 406 1 HET CU A 407 1 HET CU A 408 1 HET CU A 409 1 HETNAM CU COPPER (II) ION HETNAM CL CHLORIDE ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL FORMUL 2 CU 7(CU 2+) FORMUL 4 CL CL 1- FORMUL 5 MPD C6 H14 O2 FORMUL 11 HOH *421(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 TYR A 231 N LEU A 172 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 405 1555 1555 1.95 LINK NE2 HIS A 42 CU CU A 406 1555 8554 2.02 LINK OE1 GLU A 53 CU CU A 406 1555 1555 2.65 LINK OE2 GLU A 53 CU CU A 406 1555 1555 1.99 LINK ND1 HIS A 83 CU CU A 406 1555 8554 1.99 LINK ND1 HIS A 95 CU CU A 401 1555 1555 2.01 LINK NE2 HIS A 100 CU CU A 402 1555 1555 1.99 LINK NE2 HIS A 103 CU CU A 409 1555 3555 2.43 LINK NE2 HIS A 134 CU CU A 402 1555 1555 2.02 LINK SG CYS A 135 CU CU A 401 1555 1555 2.20 LINK ND1 HIS A 143 CU CU A 401 1555 1555 2.01 LINK SD MET A 148 CU CU A 401 1555 1555 2.58 LINK OD2 ASP A 167 CU CU A 407 1555 1555 2.10 LINK OE2AGLU A 239 CU CU A 408 1555 1555 2.16 LINK OG1 THR A 248 CU CU A 409 1555 1555 2.11 LINK N VAL A 249 CU CU A 409 1555 1555 2.01 LINK O VAL A 249 CU CU A 409 1555 1555 2.07 LINK NE2 HIS A 294 CU CU A 402 1555 2555 1.99 CISPEP 1 ALA A 69 PRO A 70 0 -12.71 CISPEP 2 LYS A 138 PRO A 139 0 -6.41 CISPEP 3 LYS A 138 PRO A 139 0 -4.68 CISPEP 4 GLY A 236 PRO A 237 0 18.53 CRYST1 115.126 115.126 84.430 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 0.008686 0.005015 0.000000 0.00000 SCALE2 0.000000 0.010030 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011844 0.00000 CONECT 539 5762 CONECT 791 5763 CONECT 792 5763 CONECT 1561 5737 CONECT 1643 5738 CONECT 2269 5738 CONECT 2282 5737 CONECT 2427 5737 CONECT 2494 5737 CONECT 2915 5764 CONECT 4483 5765 CONECT 4617 5766 CONECT 4625 5766 CONECT 4628 5766 CONECT 5737 1561 2282 2427 2494 CONECT 5738 1643 2269 CONECT 5740 5741 5748 5749 5750 CONECT 5741 5740 5742 5743 5744 CONECT 5742 5741 5751 CONECT 5743 5741 5752 5753 5754 CONECT 5744 5741 5745 5755 5756 CONECT 5745 5744 5746 5747 5757 CONECT 5746 5745 5758 CONECT 5747 5745 5759 5760 5761 CONECT 5748 5740 CONECT 5749 5740 CONECT 5750 5740 CONECT 5751 5742 CONECT 5752 5743 CONECT 5753 5743 CONECT 5754 5743 CONECT 5755 5744 CONECT 5756 5744 CONECT 5757 5745 CONECT 5758 5746 CONECT 5759 5747 CONECT 5760 5747 CONECT 5761 5747 CONECT 5762 539 CONECT 5763 791 792 CONECT 5764 2915 CONECT 5765 4483 CONECT 5766 4617 4625 4628 MASTER 382 0 9 7 22 0 0 6 2767 1 43 24 END