HEADER ELECTRON TRANSPORT 27-NOV-18 6IAV TITLE CO-AZURIN FROM PSEUDOMONAS AERUGINOSA TREATED WITH HYDROSULFIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: AZURIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 GENE: AZU, PA4922; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693 KEYWDS COBALT PROTEIN, HYDROSULFIDE SENSOR, ELECTRON TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR G.J.PALM,D.KOHLHAUSE REVDAT 2 24-JAN-24 6IAV 1 LINK REVDAT 1 30-JAN-19 6IAV 0 JRNL AUTH M.STRIANESE,G.J.PALM,D.KOHLHAUSE,L.A.NDAMBA,L.C.TABARES, JRNL AUTH 2 C.PELLECCHIA JRNL TITL AZURIN AND HS-: TOWARDS IMPLEMENTATION OF A SENSOR FOR HS- JRNL TITL 2 DETECTION. JRNL REF EUR J INORG CHEM 2019 JRNL REFN ESSN 1099-0682 JRNL DOI 10.1002/EJIC.201801399 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.48 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 30604 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.253 REMARK 3 R VALUE (WORKING SET) : 0.250 REMARK 3 FREE R VALUE : 0.310 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1563 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2152 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.4250 REMARK 3 BIN FREE R VALUE SET COUNT : 120 REMARK 3 BIN FREE R VALUE : 0.4520 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3845 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 7 REMARK 3 SOLVENT ATOMS : 29 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.81000 REMARK 3 B22 (A**2) : 4.07000 REMARK 3 B33 (A**2) : -0.23000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.90000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.263 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.228 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.296 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 26.746 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.913 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3961 ; 0.025 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 3591 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5357 ; 2.737 ; 1.635 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8415 ; 1.575 ; 1.585 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 518 ; 9.192 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 170 ;39.087 ;26.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 707 ;19.653 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ; 9.355 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 528 ; 0.126 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4425 ; 0.016 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 724 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2042 ; 3.080 ; 2.367 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2041 ; 3.076 ; 2.364 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2549 ; 4.689 ; 3.530 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2550 ; 4.690 ; 3.533 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1919 ; 3.353 ; 2.552 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1920 ; 3.352 ; 2.554 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2802 ; 4.984 ; 3.706 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4147 ; 6.950 ;27.303 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4147 ; 6.953 ;27.319 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 6 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 2 128 B 2 128 3855 0.11 0.05 REMARK 3 2 A 2 128 C 2 128 3911 0.09 0.05 REMARK 3 3 A 2 128 D 2 128 3861 0.12 0.05 REMARK 3 4 B 2 128 C 2 128 3843 0.10 0.05 REMARK 3 5 B 2 128 D 2 128 3839 0.12 0.05 REMARK 3 6 C 2 128 D 2 128 3867 0.10 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 130 REMARK 3 ORIGIN FOR THE GROUP (A): -4.0170 31.7350 80.0890 REMARK 3 T TENSOR REMARK 3 T11: 0.1916 T22: 0.0424 REMARK 3 T33: 0.3786 T12: -0.0700 REMARK 3 T13: 0.1679 T23: -0.0704 REMARK 3 L TENSOR REMARK 3 L11: 2.9929 L22: 2.5243 REMARK 3 L33: 6.6880 L12: -0.8261 REMARK 3 L13: -1.2063 L23: 1.4828 REMARK 3 S TENSOR REMARK 3 S11: 0.2947 S12: -0.2913 S13: 0.0092 REMARK 3 S21: -0.4686 S22: 0.1379 S23: -0.1282 REMARK 3 S31: -0.6028 S32: 0.2366 S33: -0.4327 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 130 REMARK 3 ORIGIN FOR THE GROUP (A): 13.8570 30.5450 54.4950 REMARK 3 T TENSOR REMARK 3 T11: 0.2742 T22: 0.3877 REMARK 3 T33: 0.4275 T12: 0.1264 REMARK 3 T13: 0.0945 T23: -0.1927 REMARK 3 L TENSOR REMARK 3 L11: 1.9052 L22: 7.1967 REMARK 3 L33: 3.0094 L12: -0.8164 REMARK 3 L13: 0.1332 L23: -1.9801 REMARK 3 S TENSOR REMARK 3 S11: 0.6032 S12: 0.6178 S13: -0.1620 REMARK 3 S21: 0.3587 S22: -0.8021 S23: 0.6125 REMARK 3 S31: 0.0101 S32: 0.5753 S33: 0.1988 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 2 C 130 REMARK 3 ORIGIN FOR THE GROUP (A): 21.1770 27.1890 95.3790 REMARK 3 T TENSOR REMARK 3 T11: 0.0477 T22: 0.1244 REMARK 3 T33: 0.3232 T12: -0.0366 REMARK 3 T13: 0.0140 T23: -0.0936 REMARK 3 L TENSOR REMARK 3 L11: 2.7010 L22: 2.1588 REMARK 3 L33: 8.7706 L12: 0.1255 REMARK 3 L13: 0.3839 L23: 0.4816 REMARK 3 S TENSOR REMARK 3 S11: 0.1584 S12: -0.4839 S13: 0.0397 REMARK 3 S21: -0.0378 S22: 0.1601 S23: -0.1359 REMARK 3 S31: 0.4726 S32: -0.0917 S33: -0.3185 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 2 D 130 REMARK 3 ORIGIN FOR THE GROUP (A): -11.1010 27.6170 38.8240 REMARK 3 T TENSOR REMARK 3 T11: 0.0732 T22: 0.0166 REMARK 3 T33: 0.3029 T12: -0.0141 REMARK 3 T13: 0.0490 T23: 0.0290 REMARK 3 L TENSOR REMARK 3 L11: 4.3301 L22: 2.8737 REMARK 3 L33: 11.9876 L12: 0.0872 REMARK 3 L13: 4.5826 L23: 0.5541 REMARK 3 S TENSOR REMARK 3 S11: 0.2452 S12: -0.0476 S13: -0.4326 REMARK 3 S21: -0.3056 S22: 0.0955 S23: -0.0246 REMARK 3 S31: 0.0391 S32: 0.2479 S33: -0.3407 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 6IAV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-NOV-18. REMARK 100 THE DEPOSITION ID IS D_1200012943. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-JUL-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PETRA III, DESY REMARK 200 BEAMLINE : P11 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.6039 REMARK 200 MONOCHROMATOR : MIRROR REMARK 200 OPTICS : SI111 REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31819 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.480 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : 2.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09000 REMARK 200 FOR THE DATA SET : 6.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.46400 REMARK 200 FOR SHELL : 2.200 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: 6GYI REMARK 200 REMARK 200 REMARK: TRAPEZOIDAL PLATES REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.21 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 4000, 100 MM TRIS PH 7.5, 200 REMARK 280 MM CACL2, 10 MM NA2S. CRYOPROTECTANT: 10% PEG 4000, 20% PEG 400, REMARK 280 100 MM TRIS PH 7.5, 200 MM CACL2, PH 7.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 29.97500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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 REMARK 350 BIOMOLECULE: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 2 CG CD OE1 OE2 REMARK 470 LYS A 128 CD CE NZ REMARK 470 GLU B 2 CG CD OE1 OE2 REMARK 470 LYS B 128 CE NZ REMARK 470 GLU C 2 CG CD OE1 OE2 REMARK 470 LYS C 128 CD CE NZ REMARK 470 GLU D 2 CG CD OE1 OE2 REMARK 470 LYS D 128 CD CE NZ 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 C 302 O HOH C 308 1.70 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 35 CE1 HIS A 35 NE2 0.118 REMARK 500 SER B 51 CB SER B 51 OG 0.094 REMARK 500 SER B 94 CA SER B 94 CB -0.105 REMARK 500 MET B 121 C MET B 121 O -0.138 REMARK 500 LEU C 33 C LEU C 33 O 0.117 REMARK 500 GLU C 91 CD GLU C 91 OE1 -0.072 REMARK 500 GLN D 8 C GLN D 8 O 0.116 REMARK 500 THR D 17 C THR D 17 O 0.153 REMARK 500 HIS D 46 CE1 HIS D 46 NE2 0.118 REMARK 500 GLN D 107 C GLN D 107 O 0.115 REMARK 500 TYR D 108 C TYR D 108 O 0.132 REMARK 500 GLY D 116 C GLY D 116 O -0.099 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 ASP A 62 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 TYR A 108 CB - CG - CD1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ASP B 6 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 GLY B 116 C - N - CA ANGL. DEV. = 13.5 DEGREES REMARK 500 LYS B 128 CA - C - O ANGL. DEV. = 14.2 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 MET A 13 41.82 70.37 REMARK 500 PRO A 36 -172.40 -68.15 REMARK 500 ASP A 77 107.54 -44.76 REMARK 500 SER A 89 132.59 -31.04 REMARK 500 ALA B 19 113.88 -165.07 REMARK 500 SER B 89 130.31 -28.26 REMARK 500 PRO B 115 109.04 -56.64 REMARK 500 CYS C 3 19.50 55.12 REMARK 500 PRO C 36 -174.44 -69.06 REMARK 500 SER C 89 129.92 -34.54 REMARK 500 PRO D 36 -170.93 -63.45 REMARK 500 ASP D 76 19.38 56.98 REMARK 500 SER D 89 128.50 -28.76 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 GLY A 37 ASN A 38 -147.57 REMARK 500 GLY B 37 ASN B 38 -144.87 REMARK 500 GLY C 37 ASN C 38 -148.39 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 TRP A 48 -10.99 REMARK 500 THR A 96 -10.45 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 CO A 201 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 45 O REMARK 620 2 HIS A 46 ND1 82.2 REMARK 620 3 HIS A 117 ND1 93.0 107.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 202 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 94 O REMARK 620 2 GLY C 105 O 41.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 202 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 105 O REMARK 620 2 SER C 94 O 160.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO B 201 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY B 45 O REMARK 620 2 HIS B 46 ND1 79.6 REMARK 620 3 HIS B 117 ND1 84.0 100.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO C 201 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY C 45 O REMARK 620 2 HIS C 46 ND1 80.0 REMARK 620 3 HIS C 117 ND1 92.8 100.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CO D 201 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY D 45 O REMARK 620 2 HIS D 46 ND1 78.2 REMARK 620 3 HIS D 117 ND1 80.6 105.5 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CO A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CO B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CO C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CO D 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6GYI RELATED DB: PDB REMARK 900 NATIVE CU INSTAEAD OF CO DBREF 6IAV A 2 128 UNP P00282 AZUR_PSEAE 22 148 DBREF 6IAV B 2 128 UNP P00282 AZUR_PSEAE 22 148 DBREF 6IAV C 2 128 UNP P00282 AZUR_PSEAE 22 148 DBREF 6IAV D 2 128 UNP P00282 AZUR_PSEAE 22 148 SEQRES 1 A 127 GLU CYS SER VAL ASP ILE GLN GLY ASN ASP GLN MET GLN SEQRES 2 A 127 PHE ASN THR ASN ALA ILE THR VAL ASP LYS SER CYS LYS SEQRES 3 A 127 GLN PHE THR VAL ASN LEU SER HIS PRO GLY ASN LEU PRO SEQRES 4 A 127 LYS ASN VAL MET GLY HIS ASN TRP VAL LEU SER THR ALA SEQRES 5 A 127 ALA ASP MET GLN GLY VAL VAL THR ASP GLY MET ALA SER SEQRES 6 A 127 GLY LEU ASP LYS ASP TYR LEU LYS PRO ASP ASP SER ARG SEQRES 7 A 127 VAL ILE ALA HIS THR LYS LEU ILE GLY SER GLY GLU LYS SEQRES 8 A 127 ASP SER VAL THR PHE ASP VAL SER LYS LEU LYS GLU GLY SEQRES 9 A 127 GLU GLN TYR MET PHE PHE CYS THR PHE PRO GLY HIS SER SEQRES 10 A 127 ALA LEU MET LYS GLY THR LEU THR LEU LYS SEQRES 1 B 127 GLU CYS SER VAL ASP ILE GLN GLY ASN ASP GLN MET GLN SEQRES 2 B 127 PHE ASN THR ASN ALA ILE THR VAL ASP LYS SER CYS LYS SEQRES 3 B 127 GLN PHE THR VAL ASN LEU SER HIS PRO GLY ASN LEU PRO SEQRES 4 B 127 LYS ASN VAL MET GLY HIS ASN TRP VAL LEU SER THR ALA SEQRES 5 B 127 ALA ASP MET GLN GLY VAL VAL THR ASP GLY MET ALA SER SEQRES 6 B 127 GLY LEU ASP LYS ASP TYR LEU LYS PRO ASP ASP SER ARG SEQRES 7 B 127 VAL ILE ALA HIS THR LYS LEU ILE GLY SER GLY GLU LYS SEQRES 8 B 127 ASP SER VAL THR PHE ASP VAL SER LYS LEU LYS GLU GLY SEQRES 9 B 127 GLU GLN TYR MET PHE PHE CYS THR PHE PRO GLY HIS SER SEQRES 10 B 127 ALA LEU MET LYS GLY THR LEU THR LEU LYS SEQRES 1 C 127 GLU CYS SER VAL ASP ILE GLN GLY ASN ASP GLN MET GLN SEQRES 2 C 127 PHE ASN THR ASN ALA ILE THR VAL ASP LYS SER CYS LYS SEQRES 3 C 127 GLN PHE THR VAL ASN LEU SER HIS PRO GLY ASN LEU PRO SEQRES 4 C 127 LYS ASN VAL MET GLY HIS ASN TRP VAL LEU SER THR ALA SEQRES 5 C 127 ALA ASP MET GLN GLY VAL VAL THR ASP GLY MET ALA SER SEQRES 6 C 127 GLY LEU ASP LYS ASP TYR LEU LYS PRO ASP ASP SER ARG SEQRES 7 C 127 VAL ILE ALA HIS THR LYS LEU ILE GLY SER GLY GLU LYS SEQRES 8 C 127 ASP SER VAL THR PHE ASP VAL SER LYS LEU LYS GLU GLY SEQRES 9 C 127 GLU GLN TYR MET PHE PHE CYS THR PHE PRO GLY HIS SER SEQRES 10 C 127 ALA LEU MET LYS GLY THR LEU THR LEU LYS SEQRES 1 D 127 GLU CYS SER VAL ASP ILE GLN GLY ASN ASP GLN MET GLN SEQRES 2 D 127 PHE ASN THR ASN ALA ILE THR VAL ASP LYS SER CYS LYS SEQRES 3 D 127 GLN PHE THR VAL ASN LEU SER HIS PRO GLY ASN LEU PRO SEQRES 4 D 127 LYS ASN VAL MET GLY HIS ASN TRP VAL LEU SER THR ALA SEQRES 5 D 127 ALA ASP MET GLN GLY VAL VAL THR ASP GLY MET ALA SER SEQRES 6 D 127 GLY LEU ASP LYS ASP TYR LEU LYS PRO ASP ASP SER ARG SEQRES 7 D 127 VAL ILE ALA HIS THR LYS LEU ILE GLY SER GLY GLU LYS SEQRES 8 D 127 ASP SER VAL THR PHE ASP VAL SER LYS LEU LYS GLU GLY SEQRES 9 D 127 GLU GLN TYR MET PHE PHE CYS THR PHE PRO GLY HIS SER SEQRES 10 D 127 ALA LEU MET LYS GLY THR LEU THR LEU LYS HET CO A 201 1 HET CA A 202 1 HET CO B 201 1 HET CA B 202 1 HET CO C 201 1 HET CA C 202 1 HET CO D 201 1 HETNAM CO COBALT (II) ION HETNAM CA CALCIUM ION FORMUL 5 CO 4(CO 2+) FORMUL 6 CA 3(CA 2+) FORMUL 12 HOH *29(H2 O) HELIX 1 AA1 PRO A 40 GLY A 45 1 6 HELIX 2 AA2 ASP A 55 GLY A 67 1 13 HELIX 3 AA3 LEU A 68 ASP A 71 5 4 HELIX 4 AA4 SER A 100 LEU A 102 5 3 HELIX 5 AA5 GLY A 116 LEU A 120 5 5 HELIX 6 AA6 PRO B 40 GLY B 45 1 6 HELIX 7 AA7 ASP B 55 GLY B 67 1 13 HELIX 8 AA8 LEU B 68 ASP B 71 5 4 HELIX 9 AA9 SER B 100 LEU B 102 5 3 HELIX 10 AB1 GLY B 116 LEU B 120 5 5 HELIX 11 AB2 PRO C 40 GLY C 45 1 6 HELIX 12 AB3 ASP C 55 GLY C 67 1 13 HELIX 13 AB4 LEU C 68 ASP C 71 5 4 HELIX 14 AB5 SER C 100 LEU C 102 5 3 HELIX 15 AB6 PRO D 40 GLY D 45 1 6 HELIX 16 AB7 ASP D 55 GLY D 67 1 13 HELIX 17 AB8 LEU D 68 ASP D 71 5 4 HELIX 18 AB9 SER D 100 LEU D 102 5 3 SHEET 1 AA1 3 SER A 4 GLN A 8 0 SHEET 2 AA1 3 GLN A 28 SER A 34 1 O ASN A 32 N ILE A 7 SHEET 3 AA1 3 LYS A 92 ASP A 98 -1 O ASP A 93 N LEU A 33 SHEET 1 AA2 5 ALA A 19 ASP A 23 0 SHEET 2 AA2 5 LYS A 122 LYS A 128 1 O THR A 126 N ILE A 20 SHEET 3 AA2 5 TYR A 108 PHE A 111 -1 N PHE A 110 O GLY A 123 SHEET 4 AA2 5 VAL A 49 THR A 52 -1 N SER A 51 O MET A 109 SHEET 5 AA2 5 ALA A 82 HIS A 83 -1 O ALA A 82 N LEU A 50 SHEET 1 AA3 3 SER B 4 GLN B 8 0 SHEET 2 AA3 3 GLN B 28 SER B 34 1 O ASN B 32 N ILE B 7 SHEET 3 AA3 3 LYS B 92 ASP B 98 -1 O PHE B 97 N PHE B 29 SHEET 1 AA4 5 ALA B 19 ASP B 23 0 SHEET 2 AA4 5 LYS B 122 LYS B 128 1 O THR B 126 N ILE B 20 SHEET 3 AA4 5 TYR B 108 PHE B 111 -1 N PHE B 110 O GLY B 123 SHEET 4 AA4 5 VAL B 49 THR B 52 -1 N SER B 51 O MET B 109 SHEET 5 AA4 5 ALA B 82 HIS B 83 -1 O ALA B 82 N LEU B 50 SHEET 1 AA5 3 SER C 4 GLN C 8 0 SHEET 2 AA5 3 GLN C 28 SER C 34 1 O ASN C 32 N ILE C 7 SHEET 3 AA5 3 LYS C 92 ASP C 98 -1 O PHE C 97 N PHE C 29 SHEET 1 AA6 5 ALA C 19 ASP C 23 0 SHEET 2 AA6 5 LYS C 122 LYS C 128 1 O THR C 126 N ILE C 20 SHEET 3 AA6 5 TYR C 108 PHE C 111 -1 N PHE C 110 O GLY C 123 SHEET 4 AA6 5 VAL C 49 THR C 52 -1 N SER C 51 O MET C 109 SHEET 5 AA6 5 ALA C 82 HIS C 83 -1 O ALA C 82 N LEU C 50 SHEET 1 AA7 3 SER D 4 GLN D 8 0 SHEET 2 AA7 3 GLN D 28 SER D 34 1 O ASN D 32 N ILE D 7 SHEET 3 AA7 3 LYS D 92 ASP D 98 -1 O ASP D 93 N LEU D 33 SHEET 1 AA8 5 ALA D 19 ASP D 23 0 SHEET 2 AA8 5 LYS D 122 LYS D 128 1 O THR D 126 N ILE D 20 SHEET 3 AA8 5 TYR D 108 PHE D 111 -1 N PHE D 110 O GLY D 123 SHEET 4 AA8 5 VAL D 49 THR D 52 -1 N SER D 51 O MET D 109 SHEET 5 AA8 5 ALA D 82 HIS D 83 -1 O ALA D 82 N LEU D 50 SSBOND 1 CYS A 3 CYS A 26 1555 1555 2.09 SSBOND 2 CYS B 3 CYS B 26 1555 1555 2.07 SSBOND 3 CYS C 3 CYS C 26 1555 1555 2.11 SSBOND 4 CYS D 3 CYS D 26 1555 1555 2.05 LINK O GLY A 45 CO CO A 201 1555 1555 2.32 LINK ND1 HIS A 46 CO CO A 201 1555 1555 2.19 LINK O SER A 94 CA CA A 202 1555 1555 2.62 LINK O GLY A 105 CA CA C 202 1555 1555 2.91 LINK ND1 HIS A 117 CO CO A 201 1555 1555 1.97 LINK CA CA A 202 O GLY C 105 1655 1555 2.53 LINK O GLY B 45 CO CO B 201 1555 1555 2.44 LINK ND1 HIS B 46 CO CO B 201 1555 1555 2.13 LINK O SER B 94 CA CA B 202 1555 1555 2.58 LINK ND1 HIS B 117 CO CO B 201 1555 1555 2.13 LINK O GLY C 45 CO CO C 201 1555 1555 2.22 LINK ND1 HIS C 46 CO CO C 201 1555 1555 2.32 LINK O SER C 94 CA CA C 202 1555 1555 2.63 LINK ND1 HIS C 117 CO CO C 201 1555 1555 2.07 LINK O GLY D 45 CO CO D 201 1555 1555 2.65 LINK ND1 HIS D 46 CO CO D 201 1555 1555 2.11 LINK ND1 HIS D 117 CO CO D 201 1555 1555 2.13 SITE 1 AC1 5 GLY A 45 HIS A 46 CYS A 112 HIS A 117 SITE 2 AC1 5 MET A 121 SITE 1 AC2 3 ASP A 93 SER A 94 GLY C 105 SITE 1 AC3 5 GLY B 45 HIS B 46 CYS B 112 HIS B 117 SITE 2 AC3 5 MET B 121 SITE 1 AC4 3 ASP B 93 SER B 94 GLY D 105 SITE 1 AC5 6 GLY C 45 HIS C 46 CYS C 112 PHE C 114 SITE 2 AC5 6 HIS C 117 MET C 121 SITE 1 AC6 3 GLY A 105 ASP C 93 SER C 94 SITE 1 AC7 5 GLY D 45 HIS D 46 CYS D 112 HIS D 117 SITE 2 AC7 5 MET D 121 CRYST1 50.429 59.950 82.520 90.00 90.43 90.00 P 1 21 1 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 0.019830 0.000000 0.000149 0.00000 SCALE2 0.000000 0.016681 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012119 0.00000