HEADER SIDEROPHORE BINDING PROTEIN 05-MAY-16 5JR8 TITLE DISPOSAL OF IRON BY A MUTANT FORM OF SIDEROCALIN NGAL COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEUTROPHIL GELATINASE-ASSOCIATED LIPOCALIN; COMPND 3 CHAIN: A, B; 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 K-12; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 83333; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: K-12 KEYWDS FE-SIDEROPHORE BINDING PROTEIN MUTANT, SIDEROPHORE BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR P.B.RUPERT,R.K.STRONG,J.BARASCH,M.HOLLMAN,R.DENG,E.A.HOD,R.ABERGEL, AUTHOR 2 B.ALLRED,K.XU,S.DARRAH,Y.TEKABE,A.PERLSTEIN,E.BRUCK,J.STAUBER, AUTHOR 3 K.CORBIN,C.BUCHEN,V.SLAVKOVICH,J.GRAZIANO,S.SPITALNIK,A.QIU REVDAT 4 13-NOV-24 5JR8 1 REMARK REVDAT 3 27-SEP-23 5JR8 1 REMARK REVDAT 2 16-NOV-16 5JR8 1 JRNL REVDAT 1 28-SEP-16 5JR8 0 JRNL AUTH J.BARASCH,M.HOLLMEN,R.DENG,E.A.HOD,P.B.RUPERT,R.J.ABERGEL, JRNL AUTH 2 B.E.ALLRED,K.XU,S.F.DARRAH,Y.TEKABE,A.PERLSTEIN,R.WAX, JRNL AUTH 3 E.BRUCK,J.STAUBER,K.A.CORBIN,C.BUCHEN,V.SLAVKOVICH, JRNL AUTH 4 J.GRAZIANO,S.L.SPITALNIK,G.BAO,R.K.STRONG,A.QIU JRNL TITL DISPOSAL OF IRON BY A MUTANT FORM OF LIPOCALIN 2. JRNL REF NAT COMMUN V. 7 12973 2016 JRNL REFN ESSN 2041-1723 JRNL PMID 27796299 JRNL DOI 10.1038/NCOMMS12973 REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 98.29 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 18053 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 961 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) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1332 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.2860 REMARK 3 BIN FREE R VALUE SET COUNT : 60 REMARK 3 BIN FREE R VALUE : 0.3320 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2763 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 21 REMARK 3 SOLVENT ATOMS : 55 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.74 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.17000 REMARK 3 B22 (A**2) : -1.17000 REMARK 3 B33 (A**2) : 2.35000 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): 0.315 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.224 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.170 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.070 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.942 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2854 ; 0.017 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 2631 ; 0.005 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3882 ; 1.968 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6051 ; 1.176 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 342 ; 6.531 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 138 ;36.265 ;24.928 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 458 ;17.065 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ; 8.442 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 419 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3247 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 680 ; 0.005 ; 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): 1377 ; 2.041 ; 2.842 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1376 ; 2.039 ; 2.842 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1716 ; 3.252 ; 4.261 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1717 ; 3.252 ; 4.260 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1477 ; 3.384 ; 3.183 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1473 ; 3.380 ; 3.178 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2161 ; 4.797 ; 4.647 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3028 ; 6.490 ;22.801 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3029 ; 6.493 ;22.811 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 A 6 176 B 6 176 9531 0.12 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 6 A 178 REMARK 3 ORIGIN FOR THE GROUP (A): 1.9950 90.8350 15.8020 REMARK 3 T TENSOR REMARK 3 T11: 0.0700 T22: 0.0169 REMARK 3 T33: 0.1312 T12: -0.0218 REMARK 3 T13: -0.0409 T23: 0.0117 REMARK 3 L TENSOR REMARK 3 L11: 4.0959 L22: 2.6400 REMARK 3 L33: 3.4350 L12: -0.1026 REMARK 3 L13: 1.9682 L23: 0.7888 REMARK 3 S TENSOR REMARK 3 S11: -0.1931 S12: 0.2076 S13: 0.3140 REMARK 3 S21: -0.1911 S22: 0.0122 S23: -0.1373 REMARK 3 S31: -0.4083 S32: 0.1487 S33: 0.1809 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 5 B 177 REMARK 3 ORIGIN FOR THE GROUP (A): -35.7920 88.8900 21.6670 REMARK 3 T TENSOR REMARK 3 T11: 0.0879 T22: 0.1760 REMARK 3 T33: 0.2007 T12: 0.0630 REMARK 3 T13: -0.0022 T23: -0.1101 REMARK 3 L TENSOR REMARK 3 L11: 3.2919 L22: 3.5391 REMARK 3 L33: 4.0212 L12: -1.0260 REMARK 3 L13: -0.8859 L23: 0.9877 REMARK 3 S TENSOR REMARK 3 S11: -0.1775 S12: -0.1232 S13: -0.1320 REMARK 3 S21: 0.3879 S22: -0.0987 S23: 0.3494 REMARK 3 S31: 0.0342 S32: -0.5406 S33: 0.2762 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 5JR8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-MAY-16. REMARK 100 THE DEPOSITION ID IS D_1000221101. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-OCT-10 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) : 0.97740 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 : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19056 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 98.290 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 8.800 REMARK 200 R MERGE (I) : 0.07600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: 1DFV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.84 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1M NA2H/KH2 PHOSPHATE PH 8.2, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 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 32.43500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 69.48500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 69.48500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 48.65250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 69.48500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 69.48500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 16.21750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 69.48500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 69.48500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 48.65250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 69.48500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 69.48500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 16.21750 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 32.43500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 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 REMARK 350 BIOMOLECULE: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -41.0 KCAL/MOL 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 BIOMT1 2 0.000000 1.000000 0.000000 -138.97000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 138.97000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 64.87000 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 GLN A 1 REMARK 465 ASP A 2 REMARK 465 SER A 3 REMARK 465 THR A 4 REMARK 465 SER A 5 REMARK 465 ASP A 73 REMARK 465 GLN B 1 REMARK 465 ASP B 2 REMARK 465 SER B 3 REMARK 465 THR B 4 REMARK 465 GLY B 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 46 CG CD OE1 OE2 REMARK 470 ASP A 47 CG OD1 OD2 REMARK 470 ARG A 72 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 74 CG OD1 OD2 REMARK 470 GLU B 46 CG CD OE1 OE2 REMARK 470 ASP B 47 CG OD1 OD2 REMARK 470 GLU B 60 CG CD OE1 OE2 REMARK 470 GLN B 98 CG CD OE1 NE2 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 B 72 NE - CZ - NH2 ANGL. DEV. = 3.0 DEGREES REMARK 500 ASP B 74 CB - CG - OD2 ANGL. DEV. = 7.4 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 GLN A 28 159.63 -47.21 REMARK 500 ARG A 43 98.93 -54.52 REMARK 500 LYS A 62 -3.07 81.33 REMARK 500 TYR A 115 -40.16 73.05 REMARK 500 GLN A 117 -54.05 -141.38 REMARK 500 CYS A 175 -56.32 75.56 REMARK 500 GLN B 28 160.27 -49.46 REMARK 500 ASP B 47 60.94 -154.02 REMARK 500 LYS B 62 -2.64 81.27 REMARK 500 ASP B 74 33.85 -97.02 REMARK 500 TYR B 115 -39.88 70.77 REMARK 500 GLN B 117 -52.89 -140.58 REMARK 500 CYS B 175 -49.59 74.49 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 TYR A 64 ASN A 65 149.57 REMARK 500 TYR B 64 ASN B 65 149.24 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 PO4 A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 203 DBREF 5JR8 A 1 178 UNP P80188 NGAL_HUMAN 21 198 DBREF 5JR8 B 1 178 UNP P80188 NGAL_HUMAN 21 198 SEQADV 5JR8 SER A 15 UNP P80188 LYS 35 CONFLICT SEQADV 5JR8 GLU A 46 UNP P80188 LYS 66 CONFLICT SEQADV 5JR8 ASP A 73 UNP P80188 LYS 93 CONFLICT SEQADV 5JR8 ASP A 74 UNP P80188 LYS 94 CONFLICT SEQADV 5JR8 GLY A 75 UNP P80188 LYS 95 CONFLICT SEQADV 5JR8 GLN A 98 UNP P80188 LYS 118 CONFLICT SEQADV 5JR8 PHE A 118 UNP P80188 HIS 138 CONFLICT SEQADV 5JR8 GLN A 130 UNP P80188 ARG 150 CONFLICT SEQADV 5JR8 GLN A 149 UNP P80188 LYS 169 CONFLICT SEQADV 5JR8 ASN A 165 UNP P80188 HIS 185 CONFLICT SEQADV 5JR8 SER B 15 UNP P80188 LYS 35 CONFLICT SEQADV 5JR8 GLU B 46 UNP P80188 LYS 66 CONFLICT SEQADV 5JR8 ASP B 73 UNP P80188 LYS 93 CONFLICT SEQADV 5JR8 ASP B 74 UNP P80188 LYS 94 CONFLICT SEQADV 5JR8 GLY B 75 UNP P80188 LYS 95 CONFLICT SEQADV 5JR8 GLN B 98 UNP P80188 LYS 118 CONFLICT SEQADV 5JR8 PHE B 118 UNP P80188 HIS 138 CONFLICT SEQADV 5JR8 GLN B 130 UNP P80188 ARG 150 CONFLICT SEQADV 5JR8 GLN B 149 UNP P80188 LYS 169 CONFLICT SEQADV 5JR8 ASN B 165 UNP P80188 HIS 185 CONFLICT SEQRES 1 A 178 GLN ASP SER THR SER ASP LEU ILE PRO ALA PRO PRO LEU SEQRES 2 A 178 SER SER VAL PRO LEU GLN GLN ASN PHE GLN ASP ASN GLN SEQRES 3 A 178 PHE GLN GLY LYS TRP TYR VAL VAL GLY LEU ALA GLY ASN SEQRES 4 A 178 ALA ILE LEU ARG GLU ASP GLU ASP PRO GLN LYS MET TYR SEQRES 5 A 178 ALA THR ILE TYR GLU LEU LYS GLU ASP LYS SER TYR ASN SEQRES 6 A 178 VAL THR SER VAL LEU PHE ARG ASP ASP GLY CYS ASP TYR SEQRES 7 A 178 TRP ILE ARG THR PHE VAL PRO GLY CYS GLN PRO GLY GLU SEQRES 8 A 178 PHE THR LEU GLY ASN ILE GLN SER TYR PRO GLY LEU THR SEQRES 9 A 178 SER TYR LEU VAL ARG VAL VAL SER THR ASN TYR ASN GLN SEQRES 10 A 178 PHE ALA MET VAL PHE PHE LYS LYS VAL SER GLN ASN GLN SEQRES 11 A 178 GLU TYR PHE LYS ILE THR LEU TYR GLY ARG THR LYS GLU SEQRES 12 A 178 LEU THR SER GLU LEU GLN GLU ASN PHE ILE ARG PHE SER SEQRES 13 A 178 LYS SER LEU GLY LEU PRO GLU ASN ASN ILE VAL PHE PRO SEQRES 14 A 178 VAL PRO ILE ASP GLN CYS ILE ASP GLY SEQRES 1 B 178 GLN ASP SER THR SER ASP LEU ILE PRO ALA PRO PRO LEU SEQRES 2 B 178 SER SER VAL PRO LEU GLN GLN ASN PHE GLN ASP ASN GLN SEQRES 3 B 178 PHE GLN GLY LYS TRP TYR VAL VAL GLY LEU ALA GLY ASN SEQRES 4 B 178 ALA ILE LEU ARG GLU ASP GLU ASP PRO GLN LYS MET TYR SEQRES 5 B 178 ALA THR ILE TYR GLU LEU LYS GLU ASP LYS SER TYR ASN SEQRES 6 B 178 VAL THR SER VAL LEU PHE ARG ASP ASP GLY CYS ASP TYR SEQRES 7 B 178 TRP ILE ARG THR PHE VAL PRO GLY CYS GLN PRO GLY GLU SEQRES 8 B 178 PHE THR LEU GLY ASN ILE GLN SER TYR PRO GLY LEU THR SEQRES 9 B 178 SER TYR LEU VAL ARG VAL VAL SER THR ASN TYR ASN GLN SEQRES 10 B 178 PHE ALA MET VAL PHE PHE LYS LYS VAL SER GLN ASN GLN SEQRES 11 B 178 GLU TYR PHE LYS ILE THR LEU TYR GLY ARG THR LYS GLU SEQRES 12 B 178 LEU THR SER GLU LEU GLN GLU ASN PHE ILE ARG PHE SER SEQRES 13 B 178 LYS SER LEU GLY LEU PRO GLU ASN ASN ILE VAL PHE PRO SEQRES 14 B 178 VAL PRO ILE ASP GLN CYS ILE ASP GLY HET PO4 A 201 5 HET PO4 B 201 5 HET GOL B 202 6 HET PO4 B 203 5 HETNAM PO4 PHOSPHATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 PO4 3(O4 P 3-) FORMUL 5 GOL C3 H8 O3 FORMUL 7 HOH *55(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 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 GLN A 130 GLY A 139 -1 O LEU A 137 N GLY A 35 SHEET 4 AA110 PHE A 118 SER A 127 -1 N PHE A 123 O LYS A 134 SHEET 5 AA110 LEU A 103 THR A 113 -1 N SER A 112 O MET A 120 SHEET 6 AA110 GLU A 91 LEU A 94 -1 N PHE A 92 O VAL A 108 SHEET 7 AA110 CYS A 76 PRO A 85 -1 N VAL A 84 O THR A 93 SHEET 8 AA110 TYR A 64 PHE A 71 -1 N VAL A 66 O ARG A 81 SHEET 9 AA110 ALA A 53 LEU A 58 -1 N ALA A 53 O VAL A 69 SHEET 10 AA110 GLY A 29 GLY A 38 -1 N TRP A 31 O THR A 54 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 GLN B 130 GLY B 139 -1 O ILE B 135 N ALA B 37 SHEET 4 AA210 PHE B 118 SER B 127 -1 N PHE B 123 O LYS B 134 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 GLY 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 TRP B 31 O THR B 54 SSBOND 1 CYS A 76 CYS A 175 1555 1555 2.08 SSBOND 2 CYS A 87 CYS B 87 1555 1555 2.06 SSBOND 3 CYS B 76 CYS B 175 1555 1555 2.13 SITE 1 AC1 7 ARG A 81 TYR A 106 LYS A 125 LYS A 134 SITE 2 AC1 7 HOH A 302 HOH A 314 HOH A 322 SITE 1 AC2 7 TYR B 52 THR B 54 SER B 68 ARG B 81 SITE 2 AC2 7 LYS B 134 TYR B 138 PO4 B 203 SITE 1 AC3 8 ILE A 55 GLU A 57 TYR A 78 LEU B 18 SITE 2 AC3 8 GLN B 19 GLN B 20 VAL B 111 SER B 112 SITE 1 AC4 7 TRP B 79 ARG B 81 TYR B 106 LYS B 125 SITE 2 AC4 7 LYS B 134 PO4 B 201 HOH B 305 CRYST1 138.970 138.970 64.870 90.00 90.00 90.00 P 43 21 2 16 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 0.007196 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007196 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015415 0.00000