HEADER METAL BINDING PROTEIN 13-JUL-12 4G2Z TITLE CRYSTAL STRUCTURE OF C-LOBE OF BOVINE LACTOFERRIN COMPLEXED WITH TITLE 2 MEFENAMIC ACID AT 1.90 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: LACTOTRANSFERRIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-LOBE, UNP RESIDUES 361-695; COMPND 5 SYNONYM: LACTOFERRIN, LACTOFERRICIN-B, LFCIN-B; COMPND 6 EC: 3.4.21.-; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: C-TERMINAL PEPTIDE FROM LACTOTRANSFERRIN; COMPND 9 CHAIN: B SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: BOVINE; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 7 ORGANISM_COMMON: BOVINE; SOURCE 8 ORGANISM_TAXID: 9913 KEYWDS C-LOBE OF LACTOFERRIN, METAL BINDING PROTEIN, IRON BINDING PROTEIN, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR P.K.SHUKLA,L.GAUTAM,M.SINHA,P.KAUR,S.SHARMA,T.P.SINGH REVDAT 4 13-NOV-24 4G2Z 1 REMARK REVDAT 3 08-NOV-23 4G2Z 1 HETSYN REVDAT 2 29-JUL-20 4G2Z 1 COMPND REMARK SEQADV HETNAM REVDAT 2 2 1 LINK SITE ATOM REVDAT 1 01-AUG-12 4G2Z 0 JRNL AUTH P.K.SHUKLA,L.GAUTAM,M.SINHA,P.KAUR,S.SHARMA,T.P.SINGH JRNL TITL CRYSTAL STRUCTURE OF C-LOBE OF BOVINE LACTOFERRIN COMPLEXED JRNL TITL 2 WITH MEFENAMIC ACID AT 1.90 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 28959 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) : 0.150 REMARK 3 R VALUE (WORKING SET) : 0.148 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1537 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.93 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2007 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.79 REMARK 3 BIN R VALUE (WORKING SET) : 0.1640 REMARK 3 BIN FREE R VALUE SET COUNT : 120 REMARK 3 BIN FREE R VALUE : 0.1990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2604 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 100 REMARK 3 SOLVENT ATOMS : 305 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.20000 REMARK 3 B22 (A**2) : -0.14000 REMARK 3 B33 (A**2) : -0.13000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.12000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.122 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.120 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.072 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.372 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2763 ; 0.023 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3753 ; 2.096 ; 1.989 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 339 ; 6.736 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 118 ;37.210 ;25.169 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 448 ;14.922 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;23.346 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 424 ; 0.170 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2070 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4G2Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-JUL-12. REMARK 100 THE DEPOSITION ID IS D_1000073672. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-MAY-12 REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30529 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 62.050 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.03500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 36.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.13500 REMARK 200 <I/SIGMA(I)> FOR SHELL : 12.50 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 3IB0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.01M ZNSO4, 0.1M MES, 25% PEG, REMARK 280 MONOMETHYL ETHER 550, PH 6.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K 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 24.91500 REMARK 290 SMTRY3 2 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 TOTAL BURIED SURFACE AREA: 3040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -50.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 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 458 CG HIS A 458 CD2 0.074 REMARK 500 HIS A 588 CG HIS A 588 CD2 0.057 REMARK 500 SER A 601 CB SER A 601 OG -0.081 REMARK 500 HIS A 613 CG HIS A 613 CD2 0.054 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 415 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 TYR A 526 CB - CG - CD2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 600 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 600 NE - CZ - NH2 ANGL. DEV. = 4.2 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 VAL A 410 -51.78 -120.85 REMARK 500 TRP A 467 -61.45 -147.64 REMARK 500 VAL A 543 -158.70 -137.60 REMARK 500 CYS A 587 67.41 -151.70 REMARK 500 ASN A 621 24.46 46.00 REMARK 500 SER A 634 40.38 -161.49 REMARK 500 THR A 636 -5.99 75.35 REMARK 500 LEU A 640 -48.41 78.63 REMARK 500 ARG A 654 59.87 39.23 REMARK 500 GLU B 682 -122.64 -122.19 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 706 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 395 OD1 REMARK 620 2 TYR A 433 OH 86.9 REMARK 620 3 TYR A 526 OH 172.0 97.7 REMARK 620 4 HIS A 595 NE2 90.8 95.4 82.3 REMARK 620 5 CO3 A 709 O2 90.1 97.5 95.8 167.1 REMARK 620 6 CO3 A 709 O1 88.5 156.6 89.7 107.7 59.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 707 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 659 OE2 REMARK 620 2 GLU A 659 OE1 58.7 REMARK 620 N 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3IB0 RELATED DB: PDB REMARK 900 MODEL REMARK 999 REMARK 999 SEQUENCE REMARK 999 PROTEINS IN THIS STRUCTURE WERE PREPARED FROM LACTOFERRIN (RESIDUES REMARK 999 1-686) BY PROTEOLYSIS USING SERINE PROTEASE PROTEINASE K. THE REMARK 999 ENZYME CUT PROTEIN AT 342, 676, 680 THUS PRODUCING PEPTIDES OF 1- REMARK 999 341, 342-676, 677-680, 681-686. CYS 684 FROM THE FRAGMENT 681-686 REMARK 999 IS COVALENTLY BONDED TO CYS 405. THIS STRUCTURE CONTAINS PEPTIDE OF REMARK 999 342-676 AND COVALENTLY ATTACHED PEPTIDE 681- 686. (RESIDUE REMARK 999 NUMBERING ABOVE FOLLOWS THE COORDINATES. RESIDUES 1-686 CORRESPOND REMARK 999 TO RESIDUES 20-705 IN UNIPROTKB/SWISSPROT P24627, TRFL_BOVIN.) DBREF 4G2Z A 342 676 UNP P24627 TRFL_BOVIN 361 695 DBREF 4G2Z B 681 686 UNP P24627 TRFL_BOVIN 700 705 SEQADV 4G2Z LYS A 565 UNP P24627 ASN 584 CONFLICT SEQADV 4G2Z GLU A 608 UNP P24627 LYS 627 CONFLICT SEQRES 1 A 335 TYR THR ARG VAL VAL TRP CYS ALA VAL GLY PRO GLU GLU SEQRES 2 A 335 GLN LYS LYS CYS GLN GLN TRP SER GLN GLN SER GLY GLN SEQRES 3 A 335 ASN VAL THR CYS ALA THR ALA SER THR THR ASP ASP CYS SEQRES 4 A 335 ILE VAL LEU VAL LEU LYS GLY GLU ALA ASP ALA LEU ASN SEQRES 5 A 335 LEU ASP GLY GLY TYR ILE TYR THR ALA GLY LYS CYS GLY SEQRES 6 A 335 LEU VAL PRO VAL LEU ALA GLU ASN ARG LYS SER SER LYS SEQRES 7 A 335 HIS SER SER LEU ASP CYS VAL LEU ARG PRO THR GLU GLY SEQRES 8 A 335 TYR LEU ALA VAL ALA VAL VAL LYS LYS ALA ASN GLU GLY SEQRES 9 A 335 LEU THR TRP ASN SER LEU LYS ASP LYS LYS SER CYS HIS SEQRES 10 A 335 THR ALA VAL ASP ARG THR ALA GLY TRP ASN ILE PRO MET SEQRES 11 A 335 GLY LEU ILE VAL ASN GLN THR GLY SER CYS ALA PHE ASP SEQRES 12 A 335 GLU PHE PHE SER GLN SER CYS ALA PRO GLY ALA ASP PRO SEQRES 13 A 335 LYS SER ARG LEU CYS ALA LEU CYS ALA GLY ASP ASP GLN SEQRES 14 A 335 GLY LEU ASP LYS CYS VAL PRO ASN SER LYS GLU LYS TYR SEQRES 15 A 335 TYR GLY TYR THR GLY ALA PHE ARG CYS LEU ALA GLU ASP SEQRES 16 A 335 VAL GLY ASP VAL ALA PHE VAL LYS ASN ASP THR VAL TRP SEQRES 17 A 335 GLU ASN THR ASN GLY GLU SER THR ALA ASP TRP ALA LYS SEQRES 18 A 335 ASN LEU LYS ARG GLU ASP PHE ARG LEU LEU CYS LEU ASP SEQRES 19 A 335 GLY THR ARG LYS PRO VAL THR GLU ALA GLN SER CYS HIS SEQRES 20 A 335 LEU ALA VAL ALA PRO ASN HIS ALA VAL VAL SER ARG SER SEQRES 21 A 335 ASP ARG ALA ALA HIS VAL GLU GLN VAL LEU LEU HIS GLN SEQRES 22 A 335 GLN ALA LEU PHE GLY LYS ASN GLY LYS ASN CYS PRO ASP SEQRES 23 A 335 LYS PHE CYS LEU PHE LYS SER GLU THR LYS ASN LEU LEU SEQRES 24 A 335 PHE ASN ASP ASN THR GLU CYS LEU ALA LYS LEU GLY GLY SEQRES 25 A 335 ARG PRO THR TYR GLU GLU TYR LEU GLY THR GLU TYR VAL SEQRES 26 A 335 THR ALA ILE ALA ASN LEU LYS LYS CYS SER SEQRES 1 B 6 LEU GLU ALA CYS ALA PHE MODRES 4G2Z ASN A 545 ASN GLYCOSYLATION SITE MODRES 4G2Z ASN A 476 ASN GLYCOSYLATION SITE MODRES 4G2Z ASN A 368 ASN GLYCOSYLATION SITE HET NAG C 1 14 HET NAG C 2 14 HET NAG D 1 14 HET NAG D 2 14 HET NAG A 701 14 HET FE A 706 1 HET ZN A 707 1 HET ZN A 708 1 HET CO3 A 709 4 HET SO4 A 710 5 HET ID8 A 711 18 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM FE FE (III) ION HETNAM ZN ZINC ION HETNAM CO3 CARBONATE ION HETNAM SO4 SULFATE ION HETNAM ID8 2-[(2,3-DIMETHYLPHENYL)AMINO]BENZOIC ACID HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN ID8 MEFENAMIC ACID FORMUL 3 NAG 5(C8 H15 N O6) FORMUL 6 FE FE 3+ FORMUL 7 ZN 2(ZN 2+) FORMUL 9 CO3 C O3 2- FORMUL 10 SO4 O4 S 2- FORMUL 11 ID8 C15 H15 N O2 FORMUL 12 HOH *305(H2 O) HELIX 1 1 GLY A 351 SER A 365 1 15 HELIX 2 2 THR A 376 LYS A 386 1 11 HELIX 3 3 ASP A 395 CYS A 405 1 11 HELIX 4 4 THR A 447 LEU A 451 5 5 HELIX 5 5 TRP A 467 GLY A 479 1 13 HELIX 6 6 SER A 499 ALA A 503 5 5 HELIX 7 7 TYR A 524 GLU A 535 1 12 HELIX 8 8 ASN A 545 ASN A 551 1 7 HELIX 9 9 LYS A 565 GLU A 567 5 3 HELIX 10 10 PRO A 580 CYS A 587 5 8 HELIX 11 11 ARG A 603 GLY A 619 1 17 HELIX 12 12 THR A 656 GLY A 662 1 7 HELIX 13 13 GLY A 662 LYS A 674 1 13 SHEET 1 A 2 VAL A 345 VAL A 350 0 SHEET 2 A 2 VAL A 369 ALA A 374 1 O THR A 370 N TRP A 347 SHEET 1 B 4 ALA A 391 LEU A 394 0 SHEET 2 B 4 ALA A 596 SER A 599 -1 O ALA A 596 N LEU A 394 SHEET 3 B 4 VAL A 408 ARG A 415 -1 N VAL A 410 O VAL A 597 SHEET 4 B 4 THR A 645 LYS A 650 -1 O ALA A 649 N ALA A 412 SHEET 1 C 6 GLN A 489 CYS A 491 0 SHEET 2 C 6 LYS A 455 HIS A 458 1 N HIS A 458 O CYS A 491 SHEET 3 C 6 VAL A 540 LYS A 544 1 O PHE A 542 N CYS A 457 SHEET 4 C 6 TYR A 433 LYS A 440 -1 N VAL A 438 O ALA A 541 SHEET 5 C 6 PHE A 569 LEU A 572 -1 O LEU A 572 N ALA A 437 SHEET 6 C 6 ARG A 578 LYS A 579 -1 O LYS A 579 N LEU A 571 SHEET 1 D 5 GLN A 489 CYS A 491 0 SHEET 2 D 5 LYS A 455 HIS A 458 1 N HIS A 458 O CYS A 491 SHEET 3 D 5 VAL A 540 LYS A 544 1 O PHE A 542 N CYS A 457 SHEET 4 D 5 TYR A 433 LYS A 440 -1 N VAL A 438 O ALA A 541 SHEET 5 D 5 ALA A 590 ALA A 592 -1 O ALA A 592 N TYR A 433 SSBOND 1 CYS A 348 CYS A 380 1555 1555 2.07 SSBOND 2 CYS A 358 CYS A 371 1555 1555 2.15 SSBOND 3 CYS A 405 CYS B 684 1555 1555 2.07 SSBOND 4 CYS A 425 CYS A 647 1555 1555 2.05 SSBOND 5 CYS A 457 CYS A 532 1555 1555 2.07 SSBOND 6 CYS A 481 CYS A 675 1555 1555 2.11 SSBOND 7 CYS A 491 CYS A 505 1555 1555 2.04 SSBOND 8 CYS A 502 CYS A 515 1555 1555 2.04 SSBOND 9 CYS A 573 CYS A 587 1555 1555 2.08 SSBOND 10 CYS A 625 CYS A 630 1555 1555 2.10 LINK ND2 ASN A 368 C1 NAG A 701 1555 1555 1.44 LINK ND2 ASN A 476 C1 NAG C 1 1555 1555 1.43 LINK ND2 ASN A 545 C1 NAG D 1 1555 1555 1.43 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.46 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.43 LINK OD1 ASP A 395 FE FE A 706 1555 1555 2.09 LINK OH TYR A 433 FE FE A 706 1555 1555 2.04 LINK OH TYR A 526 FE FE A 706 1555 1555 2.06 LINK NE2 HIS A 588 ZN ZN A 708 1555 1555 2.05 LINK NE2 HIS A 595 FE FE A 706 1555 1555 2.17 LINK OE2 GLU A 659 ZN ZN A 707 1555 1555 2.12 LINK OE1 GLU A 659 ZN ZN A 707 1555 1555 2.29 LINK FE FE A 706 O2 CO3 A 709 1555 1555 2.10 LINK FE FE A 706 O1 CO3 A 709 1555 1555 2.15 CISPEP 1 CYS A 625 PRO A 626 0 17.79 CRYST1 62.388 49.830 65.323 90.00 107.05 90.00 P 1 21 1 2 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 0.016029 0.000000 0.004915 0.00000 SCALE2 0.000000 0.020068 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016012 0.00000