HEADER TRANSPORT PROTEIN 16-JUN-16 5KIC TITLE LONG-SOUGHT STABILIZATION OF BERKELIUM(IV) IN SOLUTION: AN ANOMALY TITLE 2 WITHIN THE HEAVY ACTINIDE SERIES COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEUTROPHIL GELATINASE-ASSOCIATED LIPOCALIN; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: NGAL,25 KDA ALPHA-2-MICROGLOBULIN-RELATED SUBUNIT OF MMP-9, COMPND 5 LIPOCALIN-2,ONCOGENE 24P3,SIDEROCALIN LCN2,P25; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: LCN2, HNL, NGAL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SIDEROPHORE-BINDING, NGAL, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR P.B.RUPERT,R.K.STRONG REVDAT 4 27-SEP-23 5KIC 1 REMARK REVDAT 3 06-SEP-17 5KIC 1 JRNL REVDAT 2 10-MAY-17 5KIC 1 JRNL REVDAT 1 26-APR-17 5KIC 0 JRNL AUTH G.J.DEBLONDE,M.STURZBECHER-HOEHNE,P.B.RUPERT,D.D.AN, JRNL AUTH 2 M.C.ILLY,C.Y.RALSTON,J.BRABEC,W.A.DE JONG,R.K.STRONG, JRNL AUTH 3 R.J.ABERGEL JRNL TITL CHELATION AND STABILIZATION OF BERKELIUM IN OXIDATION STATE JRNL TITL 2 +IV. JRNL REF NAT CHEM V. 9 843 2017 JRNL REFN ESSN 1755-4349 JRNL PMID 28837177 JRNL DOI 10.1038/NCHEM.2759 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0124 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 20852 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) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1076 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1469 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.57 REMARK 3 BIN R VALUE (WORKING SET) : 0.3100 REMARK 3 BIN FREE R VALUE SET COUNT : 78 REMARK 3 BIN FREE R VALUE : 0.3380 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4159 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 183 REMARK 3 SOLVENT ATOMS : 40 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 60.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.34000 REMARK 3 B22 (A**2) : -1.34000 REMARK 3 B33 (A**2) : 2.68000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.651 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.306 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.231 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 23.496 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.941 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.916 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4456 ; 0.015 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 4099 ; 0.007 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6064 ; 1.683 ; 2.002 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9421 ; 1.381 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 520 ; 6.422 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 191 ;35.989 ;24.293 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 696 ;15.487 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;18.052 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 642 ; 0.101 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5031 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1060 ; 0.007 ; 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): 2089 ; 1.655 ; 3.278 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2088 ; 1.655 ; 3.278 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2606 ; 2.764 ; 4.914 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2607 ; 2.764 ; 4.914 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2367 ; 2.667 ; 4.078 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2356 ; 2.639 ; 4.051 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3441 ; 4.236 ; 5.937 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4675 ; 7.246 ;30.338 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4675 ; 7.246 ;30.346 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 : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 B 3 177 C 3 177 19480 0.10 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 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 5 A 177 REMARK 3 ORIGIN FOR THE GROUP (A): 31.5890 75.9670 51.2960 REMARK 3 T TENSOR REMARK 3 T11: 0.1551 T22: 0.1091 REMARK 3 T33: 0.0793 T12: -0.0279 REMARK 3 T13: 0.0470 T23: 0.0123 REMARK 3 L TENSOR REMARK 3 L11: 2.5800 L22: 6.9796 REMARK 3 L33: 3.2873 L12: -1.7838 REMARK 3 L13: 0.8122 L23: 0.4453 REMARK 3 S TENSOR REMARK 3 S11: 0.2313 S12: -0.1056 S13: 0.0821 REMARK 3 S21: 0.2158 S22: 0.0752 S23: -0.3181 REMARK 3 S31: -0.2997 S32: 0.0752 S33: -0.3064 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 3 B 177 REMARK 3 ORIGIN FOR THE GROUP (A): 58.0440 100.0320 35.5190 REMARK 3 T TENSOR REMARK 3 T11: 0.1638 T22: 0.2988 REMARK 3 T33: 0.0801 T12: -0.0599 REMARK 3 T13: 0.0518 T23: -0.0276 REMARK 3 L TENSOR REMARK 3 L11: 4.5002 L22: 3.1776 REMARK 3 L33: 4.4091 L12: -0.4113 REMARK 3 L13: 1.4015 L23: 0.9312 REMARK 3 S TENSOR REMARK 3 S11: 0.0721 S12: 0.1371 S13: 0.3316 REMARK 3 S21: 0.2012 S22: -0.3014 S23: 0.3775 REMARK 3 S31: -0.0251 S32: -0.2686 S33: 0.2293 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 3 C 177 REMARK 3 ORIGIN FOR THE GROUP (A): 47.6280 46.5150 36.8430 REMARK 3 T TENSOR REMARK 3 T11: 0.1151 T22: 0.1333 REMARK 3 T33: 0.0233 T12: -0.0507 REMARK 3 T13: -0.0081 T23: 0.0298 REMARK 3 L TENSOR REMARK 3 L11: 5.6898 L22: 3.2548 REMARK 3 L33: 3.3372 L12: -1.5139 REMARK 3 L13: 1.1113 L23: 0.3775 REMARK 3 S TENSOR REMARK 3 S11: 0.1922 S12: 0.5434 S13: -0.0280 REMARK 3 S21: -0.3232 S22: -0.2113 S23: -0.1881 REMARK 3 S31: -0.0281 S32: 0.2721 S33: 0.0191 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 5KIC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1000222265. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24695 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 8.300 REMARK 200 R MERGE (I) : 0.07200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 42.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.40 REMARK 200 R MERGE FOR SHELL (I) : 0.72300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.400 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: 1L6M REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NACL, LI2SO4,ACETATE, AMMONIUM REMARK 280 SULFATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 54.41950 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 59.78700 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 59.78700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 27.20975 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 59.78700 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 59.78700 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 81.62925 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 59.78700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 59.78700 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 27.20975 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 59.78700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 59.78700 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 81.62925 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 54.41950 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 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 GLY A -1 REMARK 465 SER A 0 REMARK 465 GLN A 1 REMARK 465 ASP A 2 REMARK 465 SER A 3 REMARK 465 THR A 4 REMARK 465 GLY A 178 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 GLN B 1 REMARK 465 ASP B 2 REMARK 465 GLY B 178 REMARK 465 GLY C -1 REMARK 465 SER C 0 REMARK 465 GLN C 1 REMARK 465 ASP C 2 REMARK 465 GLY C 178 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 GLN A 20 CG CD OE1 NE2 REMARK 470 GLU A 44 CG CD OE1 OE2 REMARK 470 LYS A 46 CG CD CE NZ REMARK 470 ARG A 72 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 73 CG CD CE NZ REMARK 470 LYS A 74 CG CD CE NZ REMARK 470 LYS A 98 CG CD CE NZ REMARK 470 GLN A 128 CG CD OE1 NE2 REMARK 470 SER B 3 OG REMARK 470 GLU B 44 CG CD OE1 OE2 REMARK 470 LYS B 46 CG CD CE NZ REMARK 470 GLU B 57 CG CD OE1 OE2 REMARK 470 ARG B 72 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 73 CG CD CE NZ REMARK 470 LYS B 74 CG CD CE NZ REMARK 470 GLN B 128 CG CD OE1 NE2 REMARK 470 GLU B 143 CG CD OE1 OE2 REMARK 470 ARG B 154 CG CD NE CZ NH1 NH2 REMARK 470 SER C 3 OG REMARK 470 GLU C 44 CG CD OE1 OE2 REMARK 470 LYS C 46 CG CD CE NZ REMARK 470 GLU C 60 CG CD OE1 OE2 REMARK 470 ARG C 72 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 73 CG CD CE NZ REMARK 470 LYS C 98 CG CD CE NZ REMARK 470 GLN C 128 CG CD OE1 NE2 REMARK 470 GLU C 143 CG CD OE1 OE2 REMARK 470 LYS C 157 CG CD CE NZ REMARK 470 GLU C 163 CG CD OE1 OE2 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 CF CF C 201 O10 4OL C 202 2.16 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 ARG A 43 NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 43 NE - CZ - NH2 ANGL. DEV. = 3.4 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 TYR A 106 118.18 -163.61 REMARK 500 TYR A 115 -45.42 76.00 REMARK 500 GLN A 117 -55.05 -134.48 REMARK 500 CYS A 175 -45.42 67.56 REMARK 500 ASN B 96 51.02 35.38 REMARK 500 TYR B 115 -46.00 74.32 REMARK 500 GLN B 117 -56.34 -135.55 REMARK 500 CYS B 175 -46.38 67.42 REMARK 500 TYR C 115 -46.72 76.25 REMARK 500 GLN C 117 -56.44 -132.57 REMARK 500 CYS C 175 -44.97 67.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CF A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 4OL A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CF B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 4OL B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CF C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 4OL C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL C 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 206 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5KID RELATED DB: PDB REMARK 900 RELATED ID: 5KHP RELATED DB: PDB DBREF 5KIC A 1 178 UNP P80188 NGAL_HUMAN 21 198 DBREF 5KIC B 1 178 UNP P80188 NGAL_HUMAN 21 198 DBREF 5KIC C 1 178 UNP P80188 NGAL_HUMAN 21 198 SEQADV 5KIC GLY A -1 UNP P80188 EXPRESSION TAG SEQADV 5KIC SER A 0 UNP P80188 EXPRESSION TAG SEQADV 5KIC SER A 87 UNP P80188 CYS 107 CONFLICT SEQADV 5KIC GLY B -1 UNP P80188 EXPRESSION TAG SEQADV 5KIC SER B 0 UNP P80188 EXPRESSION TAG SEQADV 5KIC SER B 87 UNP P80188 CYS 107 CONFLICT SEQADV 5KIC GLY C -1 UNP P80188 EXPRESSION TAG SEQADV 5KIC SER C 0 UNP P80188 EXPRESSION TAG SEQADV 5KIC SER C 87 UNP P80188 CYS 107 CONFLICT SEQRES 1 A 180 GLY SER GLN ASP SER THR SER ASP LEU ILE PRO ALA PRO SEQRES 2 A 180 PRO LEU SER LYS VAL PRO LEU GLN GLN ASN PHE GLN ASP SEQRES 3 A 180 ASN GLN PHE GLN GLY LYS TRP TYR VAL VAL GLY LEU ALA SEQRES 4 A 180 GLY ASN ALA ILE LEU ARG GLU ASP LYS ASP PRO GLN LYS SEQRES 5 A 180 MET TYR ALA THR ILE TYR GLU LEU LYS GLU ASP LYS SER SEQRES 6 A 180 TYR ASN VAL THR SER VAL LEU PHE ARG LYS LYS LYS CYS SEQRES 7 A 180 ASP TYR TRP ILE ARG THR PHE VAL PRO GLY SER GLN PRO SEQRES 8 A 180 GLY GLU PHE THR LEU GLY ASN ILE LYS SER TYR PRO GLY SEQRES 9 A 180 LEU THR SER TYR LEU VAL ARG VAL VAL SER THR ASN TYR SEQRES 10 A 180 ASN GLN HIS ALA MET VAL PHE PHE LYS LYS VAL SER GLN SEQRES 11 A 180 ASN ARG GLU TYR PHE LYS ILE THR LEU TYR GLY ARG THR SEQRES 12 A 180 LYS GLU LEU THR SER GLU LEU LYS GLU ASN PHE ILE ARG SEQRES 13 A 180 PHE SER LYS SER LEU GLY LEU PRO GLU ASN HIS ILE VAL SEQRES 14 A 180 PHE PRO VAL PRO ILE ASP GLN CYS ILE ASP GLY SEQRES 1 B 180 GLY SER GLN ASP SER THR SER ASP LEU ILE PRO ALA PRO SEQRES 2 B 180 PRO LEU SER LYS VAL PRO LEU GLN GLN ASN PHE GLN ASP SEQRES 3 B 180 ASN GLN PHE GLN GLY LYS TRP TYR VAL VAL GLY LEU ALA SEQRES 4 B 180 GLY ASN ALA ILE LEU ARG GLU ASP LYS ASP PRO GLN LYS SEQRES 5 B 180 MET TYR ALA THR ILE TYR GLU LEU LYS GLU ASP LYS SER SEQRES 6 B 180 TYR ASN VAL THR SER VAL LEU PHE ARG LYS LYS LYS CYS SEQRES 7 B 180 ASP TYR TRP ILE ARG THR PHE VAL PRO GLY SER GLN PRO SEQRES 8 B 180 GLY GLU PHE THR LEU GLY ASN ILE LYS SER TYR PRO GLY SEQRES 9 B 180 LEU THR SER TYR LEU VAL ARG VAL VAL SER THR ASN TYR SEQRES 10 B 180 ASN GLN HIS ALA MET VAL PHE PHE LYS LYS VAL SER GLN SEQRES 11 B 180 ASN ARG GLU TYR PHE LYS ILE THR LEU TYR GLY ARG THR SEQRES 12 B 180 LYS GLU LEU THR SER GLU LEU LYS GLU ASN PHE ILE ARG SEQRES 13 B 180 PHE SER LYS SER LEU GLY LEU PRO GLU ASN HIS ILE VAL SEQRES 14 B 180 PHE PRO VAL PRO ILE ASP GLN CYS ILE ASP GLY SEQRES 1 C 180 GLY SER GLN ASP SER THR SER ASP LEU ILE PRO ALA PRO SEQRES 2 C 180 PRO LEU SER LYS VAL PRO LEU GLN GLN ASN PHE GLN ASP SEQRES 3 C 180 ASN GLN PHE GLN GLY LYS TRP TYR VAL VAL GLY LEU ALA SEQRES 4 C 180 GLY ASN ALA ILE LEU ARG GLU ASP LYS ASP PRO GLN LYS SEQRES 5 C 180 MET TYR ALA THR ILE TYR GLU LEU LYS GLU ASP LYS SER SEQRES 6 C 180 TYR ASN VAL THR SER VAL LEU PHE ARG LYS LYS LYS CYS SEQRES 7 C 180 ASP TYR TRP ILE ARG THR PHE VAL PRO GLY SER GLN PRO SEQRES 8 C 180 GLY GLU PHE THR LEU GLY ASN ILE LYS SER TYR PRO GLY SEQRES 9 C 180 LEU THR SER TYR LEU VAL ARG VAL VAL SER THR ASN TYR SEQRES 10 C 180 ASN GLN HIS ALA MET VAL PHE PHE LYS LYS VAL SER GLN SEQRES 11 C 180 ASN ARG GLU TYR PHE LYS ILE THR LEU TYR GLY ARG THR SEQRES 12 C 180 LYS GLU LEU THR SER GLU LEU LYS GLU ASN PHE ILE ARG SEQRES 13 C 180 PHE SER LYS SER LEU GLY LEU PRO GLU ASN HIS ILE VAL SEQRES 14 C 180 PHE PRO VAL PRO ILE ASP GLN CYS ILE ASP GLY HET CF A 201 1 HET 4OL A 202 54 HET CL A 203 1 HET CF B 201 1 HET 4OL B 202 54 HET CL B 203 1 HET CF C 201 1 HET 4OL C 202 54 HET CL C 203 1 HET SO4 C 204 5 HET SO4 C 205 5 HET SO4 C 206 5 HETNAM CF CALIFORNIUM ION HETNAM 4OL N,N'-BUTANE-1,4-DIYLBIS[1-HYDROXY-N-(3-{[(1-HYDROXY-6- HETNAM 2 4OL OXO-1,6-DIHYDROPYRIDIN-2-YL)CARBONYL]AMINO}PROPYL)-6- HETNAM 3 4OL OXO-1,6-DIHYDROPYRIDINE-2-CARBOXAMIDE] HETNAM CL CHLORIDE ION HETNAM SO4 SULFATE ION FORMUL 4 CF 3(CF 3+) FORMUL 5 4OL 3(C34 H38 N8 O12) FORMUL 6 CL 3(CL 1-) FORMUL 13 SO4 3(O4 S 2-) FORMUL 16 HOH *40(H2 O) HELIX 1 AA1 PRO A 12 VAL A 16 5 5 HELIX 2 AA2 GLN A 23 GLN A 28 1 6 HELIX 3 AA3 ASN A 96 TYR A 100 5 5 HELIX 4 AA4 THR A 145 LEU A 159 1 15 HELIX 5 AA5 PRO A 162 ASN A 164 5 3 HELIX 6 AA6 PRO B 12 VAL B 16 5 5 HELIX 7 AA7 GLN B 23 GLN B 28 1 6 HELIX 8 AA8 ASN B 96 TYR B 100 5 5 HELIX 9 AA9 THR B 145 LEU B 159 1 15 HELIX 10 AB1 PRO B 162 ASN B 164 5 3 HELIX 11 AB2 PRO C 12 VAL C 16 5 5 HELIX 12 AB3 GLN C 23 GLN C 28 1 6 HELIX 13 AB4 ASN C 96 TYR C 100 5 5 HELIX 14 AB5 THR C 145 LEU C 159 1 15 HELIX 15 AB6 PRO C 162 ASN C 164 5 3 SHEET 1 AA110 ILE A 166 VAL A 167 0 SHEET 2 AA110 GLY A 29 GLY A 38 -1 N LEU A 36 O VAL A 167 SHEET 3 AA110 ARG A 130 GLY A 139 -1 O GLY A 139 N TYR A 32 SHEET 4 AA110 HIS A 118 SER A 127 -1 N ALA A 119 O TYR A 138 SHEET 5 AA110 LEU A 103 THR A 113 -1 N LEU A 107 O LYS A 124 SHEET 6 AA110 GLU A 91 LEU A 94 -1 N PHE A 92 O VAL A 108 SHEET 7 AA110 LYS A 75 PRO A 85 -1 N VAL A 84 O THR A 93 SHEET 8 AA110 TYR A 64 ARG A 72 -1 N VAL A 66 O ARG A 81 SHEET 9 AA110 ALA A 53 LEU A 58 -1 N ILE A 55 O THR A 67 SHEET 10 AA110 GLY A 29 GLY A 38 -1 N GLY A 29 O TYR A 56 SHEET 1 AA210 ILE B 166 VAL B 167 0 SHEET 2 AA210 GLY B 29 GLY B 38 -1 N LEU B 36 O VAL B 167 SHEET 3 AA210 ARG B 130 GLY B 139 -1 O GLY B 139 N TYR B 32 SHEET 4 AA210 HIS B 118 SER B 127 -1 N ALA B 119 O TYR B 138 SHEET 5 AA210 LEU B 103 THR B 113 -1 N ARG B 109 O PHE B 122 SHEET 6 AA210 GLU B 91 LEU B 94 -1 N PHE B 92 O VAL B 108 SHEET 7 AA210 LYS B 75 PRO B 85 -1 N VAL B 84 O THR B 93 SHEET 8 AA210 TYR B 64 ARG B 72 -1 N VAL B 66 O ARG B 81 SHEET 9 AA210 ALA B 53 LEU B 58 -1 N ILE B 55 O THR B 67 SHEET 10 AA210 GLY B 29 GLY B 38 -1 N GLY B 29 O TYR B 56 SHEET 1 AA310 ILE C 166 VAL C 167 0 SHEET 2 AA310 GLY C 29 GLY C 38 -1 N LEU C 36 O VAL C 167 SHEET 3 AA310 ARG C 130 GLY C 139 -1 O GLY C 139 N TYR C 32 SHEET 4 AA310 HIS C 118 SER C 127 -1 N ALA C 119 O TYR C 138 SHEET 5 AA310 LEU C 103 THR C 113 -1 N ARG C 109 O PHE C 122 SHEET 6 AA310 GLU C 91 LEU C 94 -1 N PHE C 92 O VAL C 108 SHEET 7 AA310 LYS C 75 PRO C 85 -1 N VAL C 84 O THR C 93 SHEET 8 AA310 TYR C 64 ARG C 72 -1 N VAL C 66 O ARG C 81 SHEET 9 AA310 ALA C 53 LEU C 58 -1 N ILE C 55 O THR C 67 SHEET 10 AA310 GLY C 29 GLY C 38 -1 N GLY C 29 O TYR C 56 SSBOND 1 CYS A 76 CYS A 175 1555 1555 2.10 SSBOND 2 CYS B 76 CYS B 175 1555 1555 2.08 SSBOND 3 CYS C 76 CYS C 175 1555 1555 2.07 SITE 1 AC1 1 4OL A 202 SITE 1 AC2 13 ALA A 40 ILE A 41 TYR A 52 SER A 68 SITE 2 AC2 13 TRP A 79 ARG A 81 TYR A 106 PHE A 123 SITE 3 AC2 13 LYS A 125 TYR A 132 LYS A 134 CF A 201 SITE 4 AC2 13 HOH A 303 SITE 1 AC3 2 THR A 54 TYR A 138 SITE 1 AC4 1 4OL B 202 SITE 1 AC5 15 ALA B 40 ILE B 41 TYR B 52 SER B 68 SITE 2 AC5 15 TRP B 79 ARG B 81 TYR B 100 TYR B 106 SITE 3 AC5 15 PHE B 123 LYS B 125 TYR B 132 PHE B 133 SITE 4 AC5 15 LYS B 134 CF B 201 HOH B 302 SITE 1 AC6 2 THR B 54 TYR B 138 SITE 1 AC7 1 4OL C 202 SITE 1 AC8 15 ALA C 40 ILE C 41 TYR C 52 SER C 68 SITE 2 AC8 15 TRP C 79 ARG C 81 TYR C 100 TYR C 106 SITE 3 AC8 15 PHE C 123 LYS C 125 TYR C 132 LYS C 134 SITE 4 AC8 15 CF C 201 CL C 203 HOH C 303 SITE 1 AC9 3 THR C 54 TYR C 138 4OL C 202 SITE 1 AD1 4 PRO A 162 ASN A 164 HIS A 165 LYS C 75 SITE 1 AD2 3 GLN A 117 ASN C 114 HIS C 118 SITE 1 AD3 3 LYS A 75 ASN C 164 HIS C 165 CRYST1 119.574 119.574 108.839 90.00 90.00 90.00 P 41 21 2 24 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 0.008363 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008363 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009188 0.00000