HEADER METAL BINDING PROTEIN 20-OCT-25 9T0V TITLE CRYSTAL STRUCTURE OF H416C NIKA MUTANT FROM ESCHERICHIA COLI IN TITLE 2 COMPLEX WITH FE(III)-EDTA COMPND MOL_ID: 1; COMPND 2 MOLECULE: NICKEL-BINDING PERIPLASMIC PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 GENE: NIKA, B3476, JW3441; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS NICKEL IMPORTER FE(III)-EDTA BINDING HIS416CYS MUTATION, METAL KEYWDS 2 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.CAVAZZA,S.MENAGE REVDAT 1 10-JUN-26 9T0V 0 JRNL AUTH M.BOUKHALLAT,I.BENHAMED,J.ARNONE,S.VAN BAAREN,C.RINALDI, JRNL AUTH 2 P.CATTY,C.MARCHI-DELAPIERRE,C.CAVAZZA,S.MENAGE JRNL TITL COVALENT INSERTION OF A MN(SALEN) TYPE COMPLEX IN JRNL TITL 2 CROSS-LINKED PROTEIN CRYSTALS: DESIGN OF AN ENANTIOSELECTIVE JRNL TITL 3 ARTIFICIAL EPOXIDASE. JRNL REF CHEMISTRY 71159 2026 JRNL REFN ISSN 0947-6539 JRNL PMID 42210913 JRNL DOI 10.1002/CHEM.71159 REMARK 2 REMARK 2 RESOLUTION. 2.54 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.13_2998: ???) 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) : 2.54 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.57 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 34159 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.830 REMARK 3 FREE R VALUE TEST SET COUNT : 1651 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 44.5690 - 5.8151 1.00 2902 145 0.1827 0.1938 REMARK 3 2 5.8151 - 4.6171 1.00 2782 148 0.1661 0.2120 REMARK 3 3 4.6171 - 4.0339 1.00 2751 134 0.1521 0.1887 REMARK 3 4 4.0339 - 3.6653 1.00 2715 137 0.1810 0.2387 REMARK 3 5 3.6653 - 3.4027 1.00 2732 146 0.2001 0.2631 REMARK 3 6 3.4027 - 3.2021 1.00 2679 147 0.2147 0.3029 REMARK 3 7 3.2021 - 3.0418 1.00 2714 141 0.2335 0.3485 REMARK 3 8 3.0418 - 2.9094 1.00 2694 147 0.2558 0.3125 REMARK 3 9 2.9094 - 2.7974 1.00 2666 124 0.2664 0.3592 REMARK 3 10 2.7974 - 2.7009 1.00 2703 130 0.2746 0.2959 REMARK 3 11 2.7009 - 2.6165 1.00 2690 129 0.2756 0.3314 REMARK 3 12 2.6165 - 2.5420 0.92 2480 123 0.3392 0.4106 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) : 0.330 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.540 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 : 0.003 8211 REMARK 3 ANGLE : 0.718 11178 REMARK 3 CHIRALITY : 0.051 1231 REMARK 3 PLANARITY : 0.005 1457 REMARK 3 DIHEDRAL : 5.338 6878 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 9T0V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-OCT-25. REMARK 100 THE DEPOSITION ID IS D_1292151559. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUN-21 REMARK 200 TEMPERATURE (KELVIN) : 93 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9677 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34187 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.540 REMARK 200 RESOLUTION RANGE LOW (A) : 47.460 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 6.620 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.54 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.70 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.9 M AMMONIUM SULFATE 100 MM SODIUM REMARK 280 ACETATE PH 4.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 43.34400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 62.09150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.46200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 62.09150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 43.34400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.46200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 ALA A 1 REMARK 465 ALA A 2 REMARK 465 VAL A 500 REMARK 465 LYS A 501 REMARK 465 PRO A 502 REMARK 465 ALA B 1 REMARK 465 ALA B 2 REMARK 465 PRO B 3 REMARK 465 VAL B 500 REMARK 465 LYS B 501 REMARK 465 PRO B 502 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLN B 119 CB CG CD OE1 NE2 REMARK 480 MET B 250 CB CG SD CE 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 802 O HOH A 810 1.85 REMARK 500 O HOH A 793 O HOH B 750 1.89 REMARK 500 O HOH B 754 O HOH B 760 1.98 REMARK 500 OH TYR A 40 O HOH A 701 2.08 REMARK 500 OG SER B 57 OD1 ASP B 59 2.09 REMARK 500 O HOH A 736 O HOH A 792 2.12 REMARK 500 O HOH A 768 O HOH A 808 2.16 REMARK 500 NH1 ARG B 389 O HOH B 701 2.17 REMARK 500 O HOH A 730 O HOH A 775 2.19 REMARK 500 O HOH A 797 O HOH A 801 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 789 O HOH B 763 3544 2.13 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 MET A 472 CB - CA - C ANGL. DEV. = 15.1 DEGREES REMARK 500 MET A 472 CB - CA - C ANGL. DEV. = 19.5 DEGREES REMARK 500 MET A 472 N - CA - CB ANGL. DEV. = 17.6 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 THR A 8 -166.87 -128.07 REMARK 500 TYR A 22 -123.04 -115.77 REMARK 500 TRP A 49 -93.04 -135.21 REMARK 500 PRO A 128 38.34 -86.29 REMARK 500 PHE A 139 53.80 -94.18 REMARK 500 LYS A 157 -91.21 -96.19 REMARK 500 GLN A 174 -65.14 -133.19 REMARK 500 ASN A 220 -156.78 -91.75 REMARK 500 THR A 260 0.38 -68.94 REMARK 500 ASP A 311 84.82 -155.76 REMARK 500 LEU A 340 88.01 -67.89 REMARK 500 SER A 415 39.02 -94.72 REMARK 500 ILE A 467 -56.96 -121.33 REMARK 500 THR B 8 -159.68 -125.68 REMARK 500 TYR B 22 -98.90 -107.20 REMARK 500 TRP B 49 -106.94 -130.30 REMARK 500 LEU B 67 -162.87 -107.24 REMARK 500 ARG B 68 89.46 87.50 REMARK 500 ASP B 69 59.74 -106.03 REMARK 500 HIS B 98 34.06 -92.63 REMARK 500 PHE B 139 51.52 -96.99 REMARK 500 LYS B 157 -91.44 -91.10 REMARK 500 GLN B 174 -70.66 -125.26 REMARK 500 ASN B 220 -158.69 -87.96 REMARK 500 ASP B 311 83.73 -154.42 REMARK 500 ASP B 350 104.52 -58.99 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 B 68 0.09 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 FE A 601 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 EDT A 602 O20 REMARK 620 2 EDT A 602 N3 71.3 REMARK 620 3 EDT A 602 O17 91.1 80.9 REMARK 620 4 EDT A 602 O15 132.7 155.0 102.6 REMARK 620 5 EDT A 602 O13 84.8 87.0 167.8 88.6 REMARK 620 6 HOH A 705 O 61.5 132.8 98.6 71.6 89.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE B 601 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 EDT B 602 N3 REMARK 620 2 EDT B 602 O17 79.5 REMARK 620 3 EDT B 602 O15 152.6 105.4 REMARK 620 4 EDT B 602 O14 90.3 164.1 78.3 REMARK 620 5 EDT B 602 O20 76.7 104.0 126.1 85.3 REMARK 620 6 HOH B 706 O 143.9 94.1 63.4 101.2 70.4 REMARK 620 N 1 2 3 4 5 DBREF 9T0V A 1 502 UNP P33590 NIKA_ECOLI 23 524 DBREF 9T0V B 1 502 UNP P33590 NIKA_ECOLI 23 524 SEQADV 9T0V CYS A 416 UNP P33590 HIS 438 ENGINEERED MUTATION SEQADV 9T0V CYS B 416 UNP P33590 HIS 438 ENGINEERED MUTATION SEQRES 1 A 502 ALA ALA PRO ASP GLU ILE THR THR ALA TRP PRO VAL ASN SEQRES 2 A 502 VAL GLY PRO LEU ASN PRO HIS LEU TYR THR PRO ASN GLN SEQRES 3 A 502 MET PHE ALA GLN SER MET VAL TYR GLU PRO LEU VAL LYS SEQRES 4 A 502 TYR GLN ALA ASP GLY SER VAL ILE PRO TRP LEU ALA LYS SEQRES 5 A 502 SER TRP THR HIS SER GLU ASP GLY LYS THR TRP THR PHE SEQRES 6 A 502 THR LEU ARG ASP ASP VAL LYS PHE SER ASN GLY GLU PRO SEQRES 7 A 502 PHE ASP ALA GLU ALA ALA ALA GLU ASN PHE ARG ALA VAL SEQRES 8 A 502 LEU ASP ASN ARG GLN ARG HIS ALA TRP LEU GLU LEU ALA SEQRES 9 A 502 ASN GLN ILE VAL ASP VAL LYS ALA LEU SER LYS THR GLU SEQRES 10 A 502 LEU GLN ILE THR LEU LYS SER ALA TYR TYR PRO PHE LEU SEQRES 11 A 502 GLN GLU LEU ALA LEU PRO ARG PRO PHE ARG PHE ILE ALA SEQRES 12 A 502 PRO SER GLN PHE LYS ASN HIS GLU THR MET ASN GLY ILE SEQRES 13 A 502 LYS ALA PRO ILE GLY THR GLY PRO TRP ILE LEU GLN GLU SEQRES 14 A 502 SER LYS LEU ASN GLN TYR ASP VAL PHE VAL ARG ASN GLU SEQRES 15 A 502 ASN TYR TRP GLY GLU LYS PRO ALA ILE LYS LYS ILE THR SEQRES 16 A 502 PHE ASN VAL ILE PRO ASP PRO THR THR ARG ALA VAL ALA SEQRES 17 A 502 PHE GLU THR GLY ASP ILE ASP LEU LEU TYR GLY ASN GLU SEQRES 18 A 502 GLY LEU LEU PRO LEU ASP THR PHE ALA ARG PHE SER GLN SEQRES 19 A 502 ASN PRO ALA TYR HIS THR GLN LEU SER GLN PRO ILE GLU SEQRES 20 A 502 THR VAL MET LEU ALA LEU ASN THR ALA LYS ALA PRO THR SEQRES 21 A 502 ASN GLU LEU ALA VAL ARG GLU ALA LEU ASN TYR ALA VAL SEQRES 22 A 502 ASN LYS LYS SER LEU ILE ASP ASN ALA LEU TYR GLY THR SEQRES 23 A 502 GLN GLN VAL ALA ASP THR LEU PHE ALA PRO SER VAL PRO SEQRES 24 A 502 TYR ALA ASN LEU GLY LEU LYS PRO SER GLN TYR ASP PRO SEQRES 25 A 502 GLN LYS ALA LYS ALA LEU LEU GLU LYS ALA GLY TRP THR SEQRES 26 A 502 LEU PRO ALA GLY LYS ASP ILE ARG GLU LYS ASN GLY GLN SEQRES 27 A 502 PRO LEU ARG ILE GLU LEU SER PHE ILE GLY THR ASP ALA SEQRES 28 A 502 LEU SER LYS SER MET ALA GLU ILE ILE GLN ALA ASP MET SEQRES 29 A 502 ARG GLN ILE GLY ALA ASP VAL SER LEU ILE GLY GLU GLU SEQRES 30 A 502 GLU SER SER ILE TYR ALA ARG GLN ARG ASP GLY ARG PHE SEQRES 31 A 502 GLY MET ILE PHE HIS ARG THR TRP GLY ALA PRO TYR ASP SEQRES 32 A 502 PRO HIS ALA PHE LEU SER SER MET ARG VAL PRO SER CYS SEQRES 33 A 502 ALA ASP PHE GLN ALA GLN GLN GLY LEU ALA ASP LYS PRO SEQRES 34 A 502 LEU ILE ASP LYS GLU ILE GLY GLU VAL LEU ALA THR HIS SEQRES 35 A 502 ASP GLU THR GLN ARG GLN ALA LEU TYR ARG ASP ILE LEU SEQRES 36 A 502 THR ARG LEU HIS ASP GLU ALA VAL TYR LEU PRO ILE SER SEQRES 37 A 502 TYR ILE SER MET MET VAL VAL SER LYS PRO GLU LEU GLY SEQRES 38 A 502 ASN ILE PRO TYR ALA PRO ILE ALA THR GLU ILE PRO PHE SEQRES 39 A 502 GLU GLN ILE LYS PRO VAL LYS PRO SEQRES 1 B 502 ALA ALA PRO ASP GLU ILE THR THR ALA TRP PRO VAL ASN SEQRES 2 B 502 VAL GLY PRO LEU ASN PRO HIS LEU TYR THR PRO ASN GLN SEQRES 3 B 502 MET PHE ALA GLN SER MET VAL TYR GLU PRO LEU VAL LYS SEQRES 4 B 502 TYR GLN ALA ASP GLY SER VAL ILE PRO TRP LEU ALA LYS SEQRES 5 B 502 SER TRP THR HIS SER GLU ASP GLY LYS THR TRP THR PHE SEQRES 6 B 502 THR LEU ARG ASP ASP VAL LYS PHE SER ASN GLY GLU PRO SEQRES 7 B 502 PHE ASP ALA GLU ALA ALA ALA GLU ASN PHE ARG ALA VAL SEQRES 8 B 502 LEU ASP ASN ARG GLN ARG HIS ALA TRP LEU GLU LEU ALA SEQRES 9 B 502 ASN GLN ILE VAL ASP VAL LYS ALA LEU SER LYS THR GLU SEQRES 10 B 502 LEU GLN ILE THR LEU LYS SER ALA TYR TYR PRO PHE LEU SEQRES 11 B 502 GLN GLU LEU ALA LEU PRO ARG PRO PHE ARG PHE ILE ALA SEQRES 12 B 502 PRO SER GLN PHE LYS ASN HIS GLU THR MET ASN GLY ILE SEQRES 13 B 502 LYS ALA PRO ILE GLY THR GLY PRO TRP ILE LEU GLN GLU SEQRES 14 B 502 SER LYS LEU ASN GLN TYR ASP VAL PHE VAL ARG ASN GLU SEQRES 15 B 502 ASN TYR TRP GLY GLU LYS PRO ALA ILE LYS LYS ILE THR SEQRES 16 B 502 PHE ASN VAL ILE PRO ASP PRO THR THR ARG ALA VAL ALA SEQRES 17 B 502 PHE GLU THR GLY ASP ILE ASP LEU LEU TYR GLY ASN GLU SEQRES 18 B 502 GLY LEU LEU PRO LEU ASP THR PHE ALA ARG PHE SER GLN SEQRES 19 B 502 ASN PRO ALA TYR HIS THR GLN LEU SER GLN PRO ILE GLU SEQRES 20 B 502 THR VAL MET LEU ALA LEU ASN THR ALA LYS ALA PRO THR SEQRES 21 B 502 ASN GLU LEU ALA VAL ARG GLU ALA LEU ASN TYR ALA VAL SEQRES 22 B 502 ASN LYS LYS SER LEU ILE ASP ASN ALA LEU TYR GLY THR SEQRES 23 B 502 GLN GLN VAL ALA ASP THR LEU PHE ALA PRO SER VAL PRO SEQRES 24 B 502 TYR ALA ASN LEU GLY LEU LYS PRO SER GLN TYR ASP PRO SEQRES 25 B 502 GLN LYS ALA LYS ALA LEU LEU GLU LYS ALA GLY TRP THR SEQRES 26 B 502 LEU PRO ALA GLY LYS ASP ILE ARG GLU LYS ASN GLY GLN SEQRES 27 B 502 PRO LEU ARG ILE GLU LEU SER PHE ILE GLY THR ASP ALA SEQRES 28 B 502 LEU SER LYS SER MET ALA GLU ILE ILE GLN ALA ASP MET SEQRES 29 B 502 ARG GLN ILE GLY ALA ASP VAL SER LEU ILE GLY GLU GLU SEQRES 30 B 502 GLU SER SER ILE TYR ALA ARG GLN ARG ASP GLY ARG PHE SEQRES 31 B 502 GLY MET ILE PHE HIS ARG THR TRP GLY ALA PRO TYR ASP SEQRES 32 B 502 PRO HIS ALA PHE LEU SER SER MET ARG VAL PRO SER CYS SEQRES 33 B 502 ALA ASP PHE GLN ALA GLN GLN GLY LEU ALA ASP LYS PRO SEQRES 34 B 502 LEU ILE ASP LYS GLU ILE GLY GLU VAL LEU ALA THR HIS SEQRES 35 B 502 ASP GLU THR GLN ARG GLN ALA LEU TYR ARG ASP ILE LEU SEQRES 36 B 502 THR ARG LEU HIS ASP GLU ALA VAL TYR LEU PRO ILE SER SEQRES 37 B 502 TYR ILE SER MET MET VAL VAL SER LYS PRO GLU LEU GLY SEQRES 38 B 502 ASN ILE PRO TYR ALA PRO ILE ALA THR GLU ILE PRO PHE SEQRES 39 B 502 GLU GLN ILE LYS PRO VAL LYS PRO HET FE A 601 1 HET EDT A 602 20 HET CL A 603 1 HET GOL A 604 6 HET ACT A 605 4 HET ACT A 606 4 HET SO4 A 607 5 HET FE B 601 1 HET EDT B 602 20 HET GOL B 603 6 HET GOL B 604 6 HETNAM FE FE (III) ION HETNAM EDT {[-(BIS-CARBOXYMETHYL-AMINO)-ETHYL]-CARBOXYMETHYL- HETNAM 2 EDT AMINO}-ACETIC ACID HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETNAM ACT ACETATE ION HETNAM SO4 SULFATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 FE 2(FE 3+) FORMUL 4 EDT 2(C10 H16 N2 O8) FORMUL 5 CL CL 1- FORMUL 6 GOL 3(C3 H8 O3) FORMUL 7 ACT 2(C2 H3 O2 1-) FORMUL 9 SO4 O4 S 2- FORMUL 14 HOH *178(H2 O) HELIX 1 AA1 GLN A 26 TYR A 34 1 9 HELIX 2 AA2 ASP A 80 ASP A 93 1 14 HELIX 3 AA3 ASN A 94 ALA A 99 5 6 HELIX 4 AA4 GLU A 102 GLN A 106 1 5 HELIX 5 AA5 PRO A 128 ALA A 134 1 7 HELIX 6 AA6 ALA A 143 SER A 145 5 3 HELIX 7 AA7 ASP A 201 THR A 211 1 11 HELIX 8 AA8 PRO A 225 ASN A 235 1 11 HELIX 9 AA9 GLU A 262 ASN A 270 1 9 HELIX 10 AB1 ASN A 274 LEU A 283 1 10 HELIX 11 AB2 ASP A 311 ALA A 322 1 12 HELIX 12 AB3 ASP A 350 GLN A 366 1 17 HELIX 13 AB4 GLU A 377 GLY A 388 1 12 HELIX 14 AB5 PRO A 404 SER A 410 1 7 HELIX 15 AB6 MET A 411 VAL A 413 5 3 HELIX 16 AB7 CYS A 416 GLN A 423 1 8 HELIX 17 AB8 ASP A 427 THR A 441 1 15 HELIX 18 AB9 ASP A 443 GLU A 461 1 19 HELIX 19 AC1 PRO A 478 GLY A 481 5 4 HELIX 20 AC2 PRO A 493 ILE A 497 5 5 HELIX 21 AC3 GLN B 26 TYR B 34 1 9 HELIX 22 AC4 ASP B 80 ASP B 93 1 14 HELIX 23 AC5 ASN B 94 ALA B 99 5 6 HELIX 24 AC6 LEU B 101 GLN B 106 1 6 HELIX 25 AC7 PRO B 128 ALA B 134 1 7 HELIX 26 AC8 ALA B 143 PHE B 147 5 5 HELIX 27 AC9 ASP B 201 THR B 211 1 11 HELIX 28 AD1 PRO B 225 GLN B 234 1 10 HELIX 29 AD2 GLU B 262 ASN B 270 1 9 HELIX 30 AD3 ASN B 274 ALA B 282 1 9 HELIX 31 AD4 ASP B 311 ALA B 322 1 12 HELIX 32 AD5 ASP B 350 GLN B 366 1 17 HELIX 33 AD6 GLU B 377 GLY B 388 1 12 HELIX 34 AD7 PRO B 404 MET B 411 1 8 HELIX 35 AD8 CYS B 416 GLN B 422 1 7 HELIX 36 AD9 ASP B 427 THR B 441 1 15 HELIX 37 AE1 ASP B 443 GLU B 461 1 19 HELIX 38 AE2 PRO B 478 GLY B 481 5 4 HELIX 39 AE3 PRO B 493 ILE B 497 5 5 SHEET 1 AA1 4 GLU A 5 TRP A 10 0 SHEET 2 AA1 4 LYS A 193 VAL A 198 1 O THR A 195 N THR A 8 SHEET 3 AA1 4 TYR A 175 ARG A 180 -1 N PHE A 178 O ILE A 194 SHEET 4 AA1 4 TRP A 165 LYS A 171 -1 N GLN A 168 O VAL A 177 SHEET 1 AA2 2 VAL A 38 TYR A 40 0 SHEET 2 AA2 2 VAL A 46 PRO A 48 -1 O ILE A 47 N LYS A 39 SHEET 1 AA3 4 ALA A 51 HIS A 56 0 SHEET 2 AA3 4 THR A 62 LEU A 67 -1 O THR A 66 N LYS A 52 SHEET 3 AA3 4 GLU A 117 LEU A 122 -1 O LEU A 118 N PHE A 65 SHEET 4 AA3 4 ILE A 107 ALA A 112 -1 N VAL A 108 O THR A 121 SHEET 1 AA4 2 PHE A 147 LYS A 148 0 SHEET 2 AA4 2 GLU A 151 ILE A 156 -1 O GLU A 151 N LYS A 148 SHEET 1 AA5 3 LEU A 216 GLY A 219 0 SHEET 2 AA5 3 TYR A 464 SER A 476 -1 O VAL A 475 N LEU A 217 SHEET 3 AA5 3 GLN A 288 VAL A 289 -1 N GLN A 288 O TYR A 469 SHEET 1 AA6 6 LEU A 216 GLY A 219 0 SHEET 2 AA6 6 TYR A 464 SER A 476 -1 O VAL A 475 N LEU A 217 SHEET 3 AA6 6 HIS A 239 LEU A 253 -1 N VAL A 249 O SER A 468 SHEET 4 AA6 6 MET A 392 ARG A 396 -1 O HIS A 395 N MET A 250 SHEET 5 AA6 6 ARG A 341 ILE A 347 1 N GLU A 343 O MET A 392 SHEET 6 AA6 6 ASP A 370 GLU A 376 1 O SER A 372 N ILE A 342 SHEET 1 AA7 2 GLU A 334 LYS A 335 0 SHEET 2 AA7 2 GLN A 338 PRO A 339 -1 O GLN A 338 N LYS A 335 SHEET 1 AA8 4 GLU B 5 TRP B 10 0 SHEET 2 AA8 4 LYS B 193 VAL B 198 1 O THR B 195 N THR B 8 SHEET 3 AA8 4 TYR B 175 ARG B 180 -1 N ASP B 176 O PHE B 196 SHEET 4 AA8 4 TRP B 165 LYS B 171 -1 N LYS B 171 O TYR B 175 SHEET 1 AA9 2 VAL B 38 TYR B 40 0 SHEET 2 AA9 2 VAL B 46 PRO B 48 -1 O ILE B 47 N LYS B 39 SHEET 1 AB1 4 ALA B 51 HIS B 56 0 SHEET 2 AB1 4 THR B 62 LEU B 67 -1 O THR B 66 N SER B 53 SHEET 3 AB1 4 GLU B 117 LEU B 122 -1 O ILE B 120 N TRP B 63 SHEET 4 AB1 4 ILE B 107 ALA B 112 -1 N VAL B 108 O THR B 121 SHEET 1 AB2 3 LEU B 216 GLY B 219 0 SHEET 2 AB2 3 TYR B 464 SER B 476 -1 O MET B 473 N GLY B 219 SHEET 3 AB2 3 GLN B 288 VAL B 289 -1 N GLN B 288 O TYR B 469 SHEET 1 AB3 6 LEU B 216 GLY B 219 0 SHEET 2 AB3 6 TYR B 464 SER B 476 -1 O MET B 473 N GLY B 219 SHEET 3 AB3 6 HIS B 239 LEU B 253 -1 N VAL B 249 O SER B 468 SHEET 4 AB3 6 MET B 392 ARG B 396 -1 O ILE B 393 N ALA B 252 SHEET 5 AB3 6 ARG B 341 ILE B 347 1 N SER B 345 O MET B 392 SHEET 6 AB3 6 ASP B 370 GLU B 376 1 O SER B 372 N LEU B 344 SHEET 1 AB4 2 GLU B 334 LYS B 335 0 SHEET 2 AB4 2 GLN B 338 PRO B 339 -1 O GLN B 338 N LYS B 335 LINK FE FE A 601 O20 EDT A 602 1555 1555 2.33 LINK FE FE A 601 N3 EDT A 602 1555 1555 2.19 LINK FE FE A 601 O17 EDT A 602 1555 1555 1.97 LINK FE FE A 601 O15 EDT A 602 1555 1555 1.96 LINK FE FE A 601 O13 EDT A 602 1555 1555 1.88 LINK FE FE A 601 O HOH A 705 1555 1555 2.23 LINK FE FE B 601 N3 EDT B 602 1555 1555 2.10 LINK FE FE B 601 O17 EDT B 602 1555 1555 2.27 LINK FE FE B 601 O15 EDT B 602 1555 1555 2.23 LINK FE FE B 601 O14 EDT B 602 1555 1555 1.86 LINK FE FE B 601 O20 EDT B 602 1555 1555 2.34 LINK FE FE B 601 O HOH B 706 1555 1555 2.13 CISPEP 1 THR A 23 PRO A 24 0 2.20 CISPEP 2 ARG A 137 PRO A 138 0 6.46 CISPEP 3 ALA A 258 PRO A 259 0 0.64 CISPEP 4 ALA A 400 PRO A 401 0 2.45 CISPEP 5 ASP A 403 PRO A 404 0 -0.56 CISPEP 6 THR B 23 PRO B 24 0 10.56 CISPEP 7 ARG B 137 PRO B 138 0 5.75 CISPEP 8 ALA B 258 PRO B 259 0 2.97 CISPEP 9 ALA B 400 PRO B 401 0 -4.67 CISPEP 10 ASP B 403 PRO B 404 0 -0.87 CRYST1 86.688 94.924 124.183 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 0.011536 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010535 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008053 0.00000 CONECT 7939 7940 7944 7948 7955 CONECT 7939 7958 8017 CONECT 7940 7939 7941 CONECT 7941 7940 7942 7943 CONECT 7942 7941 CONECT 7943 7941 7944 CONECT 7944 7939 7943 7945 7949 CONECT 7945 7944 7946 CONECT 7946 7945 7947 7948 CONECT 7947 7946 CONECT 7948 7939 7946 CONECT 7949 7944 7950 CONECT 7950 7949 7951 CONECT 7951 7950 7952 7956 CONECT 7952 7951 7953 CONECT 7953 7952 7954 7955 CONECT 7954 7953 CONECT 7955 7939 7953 CONECT 7956 7951 7957 CONECT 7957 7956 7958 7959 CONECT 7958 7939 7957 CONECT 7959 7957 CONECT 7961 7962 7963 CONECT 7962 7961 CONECT 7963 7961 7964 7965 CONECT 7964 7963 CONECT 7965 7963 7966 CONECT 7966 7965 CONECT 7967 7968 7969 7970 CONECT 7968 7967 CONECT 7969 7967 CONECT 7970 7967 CONECT 7971 7972 7973 7974 CONECT 7972 7971 CONECT 7973 7971 CONECT 7974 7971 CONECT 7975 7976 7977 7978 7979 CONECT 7976 7975 CONECT 7977 7975 CONECT 7978 7975 CONECT 7979 7975 CONECT 7980 7981 7985 7989 7996 CONECT 7980 8000 8128 CONECT 7981 7980 7982 CONECT 7982 7981 7983 7984 CONECT 7983 7982 CONECT 7984 7982 7985 CONECT 7985 7980 7984 7986 7990 CONECT 7986 7985 7987 CONECT 7987 7986 7988 7989 CONECT 7988 7987 CONECT 7989 7980 7987 CONECT 7990 7985 7991 CONECT 7991 7990 7992 CONECT 7992 7991 7993 7997 CONECT 7993 7992 7994 CONECT 7994 7993 7995 7996 CONECT 7995 7994 CONECT 7996 7980 7994 CONECT 7997 7992 7998 CONECT 7998 7997 7999 8000 CONECT 7999 7998 CONECT 8000 7980 7998 CONECT 8001 8002 8003 CONECT 8002 8001 CONECT 8003 8001 8004 8005 CONECT 8004 8003 CONECT 8005 8003 8006 CONECT 8006 8005 CONECT 8007 8008 8009 CONECT 8008 8007 CONECT 8009 8007 8010 8011 CONECT 8010 8009 CONECT 8011 8009 8012 CONECT 8012 8011 CONECT 8017 7939 CONECT 8128 7980 MASTER 371 0 11 39 44 0 0 6 8129 2 77 78 END