HEADER METAL TRANSPORT 24-NOV-14 4X1B TITLE HUMAN SERUM TRANSFERRIN WITH FERRIC ION BOUND AT THE C-LOBE ONLY COMPND MOL_ID: 1; COMPND 2 MOLECULE: SEROTRANSFERRIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FE-HTF,TRANSFERRIN,BETA-1 METAL-BINDING GLOBULIN, COMPND 5 SIDEROPHILIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 ORGAN: SERUM KEYWDS TRANSFERRIN, YTTERBIUM, FERRIC, MALONATE, METAL TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR M.WANG,H.ZHANG,H.SUN REVDAT 4 08-NOV-23 4X1B 1 SOURCE REMARK REVDAT 3 06-MAY-15 4X1B 1 JRNL REVDAT 2 22-APR-15 4X1B 1 JRNL REVDAT 1 08-APR-15 4X1B 0 JRNL AUTH M.WANG,T.P.LAI,L.WANG,H.ZHANG,N.YANG,P.J.SADLER,H.SUN JRNL TITL "ANION CLAMP" ALLOWS FLEXIBLE PROTEIN TO IMPOSE COORDINATION JRNL TITL 2 GEOMETRY ON METAL IONS JRNL REF CHEM.COMMUN.(CAMB.) V. 51 7867 2015 JRNL REFN ESSN 1364-548X JRNL PMID 25854324 JRNL DOI 10.1039/C4CC09642H REMARK 2 REMARK 2 RESOLUTION. 2.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 3 NUMBER OF REFLECTIONS : 39358 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2074 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) : 2.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.51 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2208 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 75.37 REMARK 3 BIN R VALUE (WORKING SET) : 0.2270 REMARK 3 BIN FREE R VALUE SET COUNT : 114 REMARK 3 BIN FREE R VALUE : 0.2700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5045 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 14 REMARK 3 SOLVENT ATOMS : 230 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.59 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.80000 REMARK 3 B22 (A**2) : 0.15000 REMARK 3 B33 (A**2) : 0.65000 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): 0.258 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.209 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.147 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.517 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.918 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5190 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4837 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7009 ; 1.188 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11185 ; 0.778 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 646 ; 6.119 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 233 ;33.962 ;24.464 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 884 ;15.020 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;18.297 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 745 ; 0.068 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5882 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1173 ; 0.001 ; 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): 2596 ; 1.189 ; 2.888 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2595 ; 1.188 ; 2.887 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3238 ; 1.967 ; 4.325 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 : 5 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 3 A 92 REMARK 3 ORIGIN FOR THE GROUP (A): 15.6268 10.6150 -13.1781 REMARK 3 T TENSOR REMARK 3 T11: 0.1106 T22: 0.0857 REMARK 3 T33: 0.0094 T12: 0.0295 REMARK 3 T13: 0.0289 T23: 0.0129 REMARK 3 L TENSOR REMARK 3 L11: 3.1028 L22: 3.0395 REMARK 3 L33: 3.1527 L12: 0.9147 REMARK 3 L13: 0.7180 L23: 0.7965 REMARK 3 S TENSOR REMARK 3 S11: 0.0520 S12: 0.2913 S13: 0.0885 REMARK 3 S21: -0.1602 S22: -0.0002 S23: -0.0142 REMARK 3 S31: -0.2754 S32: 0.1876 S33: -0.0518 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 : A 93 A 333 REMARK 3 ORIGIN FOR THE GROUP (A): 14.5765 17.9879 8.7062 REMARK 3 T TENSOR REMARK 3 T11: 0.0790 T22: 0.0629 REMARK 3 T33: 0.0363 T12: -0.0169 REMARK 3 T13: 0.0466 T23: -0.0062 REMARK 3 L TENSOR REMARK 3 L11: 0.5264 L22: 1.6320 REMARK 3 L33: 3.5049 L12: 0.3289 REMARK 3 L13: 0.5023 L23: 0.4494 REMARK 3 S TENSOR REMARK 3 S11: 0.1167 S12: 0.0008 S13: 0.0820 REMARK 3 S21: -0.0090 S22: -0.0821 S23: 0.0529 REMARK 3 S31: -0.1988 S32: 0.0400 S33: -0.0346 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 : A 339 A 412 REMARK 3 ORIGIN FOR THE GROUP (A): 40.3123 34.4049 1.6183 REMARK 3 T TENSOR REMARK 3 T11: 0.3843 T22: 0.3986 REMARK 3 T33: 0.2610 T12: -0.2573 REMARK 3 T13: 0.0789 T23: 0.0313 REMARK 3 L TENSOR REMARK 3 L11: 5.2005 L22: 3.8385 REMARK 3 L33: 3.8770 L12: 0.2688 REMARK 3 L13: -0.2970 L23: -0.1041 REMARK 3 S TENSOR REMARK 3 S11: 0.1335 S12: -0.0175 S13: -0.1966 REMARK 3 S21: 0.1391 S22: -0.1031 S23: -0.7570 REMARK 3 S31: -0.1129 S32: 0.7466 S33: -0.0304 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 : A 413 A 583 REMARK 3 ORIGIN FOR THE GROUP (A): 34.8606 55.9308 -14.1870 REMARK 3 T TENSOR REMARK 3 T11: 0.4049 T22: 0.1796 REMARK 3 T33: 0.1738 T12: -0.1674 REMARK 3 T13: 0.0666 T23: 0.0522 REMARK 3 L TENSOR REMARK 3 L11: 4.5980 L22: 2.7167 REMARK 3 L33: 3.2984 L12: 0.7661 REMARK 3 L13: -0.8847 L23: -0.0370 REMARK 3 S TENSOR REMARK 3 S11: 0.2190 S12: -0.0612 S13: 0.4396 REMARK 3 S21: 0.5354 S22: -0.1472 S23: 0.4813 REMARK 3 S31: -0.2656 S32: -0.2652 S33: -0.0718 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 584 A 679 REMARK 3 ORIGIN FOR THE GROUP (A): 33.6416 41.3960 3.9294 REMARK 3 T TENSOR REMARK 3 T11: 0.5316 T22: 0.4039 REMARK 3 T33: 0.2328 T12: -0.2592 REMARK 3 T13: 0.1405 T23: 0.0033 REMARK 3 L TENSOR REMARK 3 L11: 3.7374 L22: 3.8744 REMARK 3 L33: 2.5733 L12: 0.5806 REMARK 3 L13: 0.1845 L23: 0.0397 REMARK 3 S TENSOR REMARK 3 S11: 0.0939 S12: -0.1657 S13: 0.4398 REMARK 3 S21: 0.3835 S22: -0.0065 S23: -0.2188 REMARK 3 S31: -0.5518 S32: 0.3917 S33: -0.0874 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 4X1B COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-NOV-14. REMARK 100 THE DEPOSITION ID IS D_1000204890. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-NOV-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97852 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL 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 : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42808 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 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 : 7.400 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.50 REMARK 200 R MERGE FOR SHELL (I) : 0.73700 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: 3QYT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M PIPES, 17% PEG3350, 18% GLYCEROL, REMARK 280 PH 6.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.58100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.58100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 68.52800 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 78.32450 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 68.52800 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 78.32450 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 53.58100 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 68.52800 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 78.32450 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 53.58100 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 68.52800 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 78.32450 REMARK 290 SMTRY3 8 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 300 REMARK: BIOLOGICAL UNIT IS THE SAME AS ASYM. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 832 LIES ON A SPECIAL POSITION. 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 VAL A 1 REMARK 465 PRO A 2 REMARK 465 ALA A 334 REMARK 465 PRO A 335 REMARK 465 THR A 336 REMARK 465 ASP A 337 REMARK 465 GLU A 338 REMARK 465 LYS A 414 REMARK 465 SER A 415 REMARK 465 ASP A 416 REMARK 465 ASN A 417 REMARK 465 CYS A 418 REMARK 465 GLU A 419 REMARK 465 ASP A 420 REMARK 465 THR A 421 REMARK 465 PRO A 422 REMARK 465 GLU A 423 REMARK 465 VAL A 612 REMARK 465 THR A 613 REMARK 465 ASP A 614 REMARK 465 CYS A 615 REMARK 465 SER A 616 REMARK 465 GLY A 617 REMARK 465 ASN A 618 REMARK 465 PHE A 619 REMARK 465 CYS A 620 REMARK 465 LEU A 621 REMARK 465 PHE A 622 REMARK 465 ARG A 623 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 LYS A 4 48.43 -108.44 REMARK 500 SER A 87 162.33 173.32 REMARK 500 TRP A 128 -62.80 -145.79 REMARK 500 CYS A 161 -3.40 83.23 REMARK 500 VAL A 205 -157.81 -140.24 REMARK 500 CYS A 241 70.97 -165.62 REMARK 500 LYS A 259 73.50 -111.51 REMARK 500 LEU A 294 -51.06 76.93 REMARK 500 LYS A 340 -145.11 48.66 REMARK 500 VAL A 363 60.80 63.68 REMARK 500 ALA A 436 85.21 -65.98 REMARK 500 TRP A 460 -60.57 -143.94 REMARK 500 LYS A 527 -31.84 -134.86 REMARK 500 THR A 626 -94.28 -120.49 REMARK 500 LEU A 630 -58.47 67.21 REMARK 500 HIS A 642 -114.30 56.02 REMARK 500 ARG A 644 51.67 -101.65 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 SER A 157 CYS A 158 149.04 REMARK 500 GLY A 257 GLY A 258 142.83 REMARK 500 LYS A 340 PRO A 341 -138.86 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 701 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 392 OD1 REMARK 620 2 TYR A 426 OH 85.7 REMARK 620 3 TYR A 517 OH 168.5 87.9 REMARK 620 4 HIS A 585 NE2 96.4 100.6 94.2 REMARK 620 5 MLI A 702 O7 82.6 86.3 87.5 172.9 REMARK 620 6 MLI A 702 O9 97.4 172.5 87.9 85.8 87.4 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MLI A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 703 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4X1D RELATED DB: PDB REMARK 900 YTTERBIUM-BOUND HUMAN SERUM TRANSFERRIN REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS SEQUENCE IS NATURAL VARIANT. DBREF 4X1B A 1 679 UNP P02787 TRFE_HUMAN 20 698 SEQADV 4X1B VAL A 429 UNP P02787 ILE 448 SEE SEQUENCE DETAILS SEQRES 1 A 679 VAL PRO ASP LYS THR VAL ARG TRP CYS ALA VAL SER GLU SEQRES 2 A 679 HIS GLU ALA THR LYS CYS GLN SER PHE ARG ASP HIS MET SEQRES 3 A 679 LYS SER VAL ILE PRO SER ASP GLY PRO SER VAL ALA CYS SEQRES 4 A 679 VAL LYS LYS ALA SER TYR LEU ASP CYS ILE ARG ALA ILE SEQRES 5 A 679 ALA ALA ASN GLU ALA ASP ALA VAL THR LEU ASP ALA GLY SEQRES 6 A 679 LEU VAL TYR ASP ALA TYR LEU ALA PRO ASN ASN LEU LYS SEQRES 7 A 679 PRO VAL VAL ALA GLU PHE TYR GLY SER LYS GLU ASP PRO SEQRES 8 A 679 GLN THR PHE TYR TYR ALA VAL ALA VAL VAL LYS LYS ASP SEQRES 9 A 679 SER GLY PHE GLN MET ASN GLN LEU ARG GLY LYS LYS SER SEQRES 10 A 679 CYS HIS THR GLY LEU GLY ARG SER ALA GLY TRP ASN ILE SEQRES 11 A 679 PRO ILE GLY LEU LEU TYR CYS ASP LEU PRO GLU PRO ARG SEQRES 12 A 679 LYS PRO LEU GLU LYS ALA VAL ALA ASN PHE PHE SER GLY SEQRES 13 A 679 SER CYS ALA PRO CYS ALA ASP GLY THR ASP PHE PRO GLN SEQRES 14 A 679 LEU CYS GLN LEU CYS PRO GLY CYS GLY CYS SER THR LEU SEQRES 15 A 679 ASN GLN TYR PHE GLY TYR SER GLY ALA PHE LYS CYS LEU SEQRES 16 A 679 LYS ASP GLY ALA GLY ASP VAL ALA PHE VAL LYS HIS SER SEQRES 17 A 679 THR ILE PHE GLU ASN LEU ALA ASN LYS ALA ASP ARG ASP SEQRES 18 A 679 GLN TYR GLU LEU LEU CYS LEU ASP ASN THR ARG LYS PRO SEQRES 19 A 679 VAL ASP GLU TYR LYS ASP CYS HIS LEU ALA GLN VAL PRO SEQRES 20 A 679 SER HIS THR VAL VAL ALA ARG SER MET GLY GLY LYS GLU SEQRES 21 A 679 ASP LEU ILE TRP GLU LEU LEU ASN GLN ALA GLN GLU HIS SEQRES 22 A 679 PHE GLY LYS ASP LYS SER LYS GLU PHE GLN LEU PHE SER SEQRES 23 A 679 SER PRO HIS GLY LYS ASP LEU LEU PHE LYS ASP SER ALA SEQRES 24 A 679 HIS GLY PHE LEU LYS VAL PRO PRO ARG MET ASP ALA LYS SEQRES 25 A 679 MET TYR LEU GLY TYR GLU TYR VAL THR ALA ILE ARG ASN SEQRES 26 A 679 LEU ARG GLU GLY THR CYS PRO GLU ALA PRO THR ASP GLU SEQRES 27 A 679 CYS LYS PRO VAL LYS TRP CYS ALA LEU SER HIS HIS GLU SEQRES 28 A 679 ARG LEU LYS CYS ASP GLU TRP SER VAL ASN SER VAL GLY SEQRES 29 A 679 LYS ILE GLU CYS VAL SER ALA GLU THR THR GLU ASP CYS SEQRES 30 A 679 ILE ALA LYS ILE MET ASN GLY GLU ALA ASP ALA MET SER SEQRES 31 A 679 LEU ASP GLY GLY PHE VAL TYR ILE ALA GLY LYS CYS GLY SEQRES 32 A 679 LEU VAL PRO VAL LEU ALA GLU ASN TYR ASN LYS SER ASP SEQRES 33 A 679 ASN CYS GLU ASP THR PRO GLU ALA GLY TYR PHE ALA VAL SEQRES 34 A 679 ALA VAL VAL LYS LYS SER ALA SER ASP LEU THR TRP ASP SEQRES 35 A 679 ASN LEU LYS GLY LYS LYS SER CYS HIS THR ALA VAL GLY SEQRES 36 A 679 ARG THR ALA GLY TRP ASN ILE PRO MET GLY LEU LEU TYR SEQRES 37 A 679 ASN LYS ILE ASN HIS CYS ARG PHE ASP GLU PHE PHE SER SEQRES 38 A 679 GLU GLY CYS ALA PRO GLY SER LYS LYS ASP SER SER LEU SEQRES 39 A 679 CYS LYS LEU CYS MET GLY SER GLY LEU ASN LEU CYS GLU SEQRES 40 A 679 PRO ASN ASN LYS GLU GLY TYR TYR GLY TYR THR GLY ALA SEQRES 41 A 679 PHE ARG CYS LEU VAL GLU LYS GLY ASP VAL ALA PHE VAL SEQRES 42 A 679 LYS HIS GLN THR VAL PRO GLN ASN THR GLY GLY LYS ASN SEQRES 43 A 679 PRO ASP PRO TRP ALA LYS ASN LEU ASN GLU LYS ASP TYR SEQRES 44 A 679 GLU LEU LEU CYS LEU ASP GLY THR ARG LYS PRO VAL GLU SEQRES 45 A 679 GLU TYR ALA ASN CYS HIS LEU ALA ARG ALA PRO ASN HIS SEQRES 46 A 679 ALA VAL VAL THR ARG LYS ASP LYS GLU ALA CYS VAL HIS SEQRES 47 A 679 LYS ILE LEU ARG GLN GLN GLN HIS LEU PHE GLY SER ASN SEQRES 48 A 679 VAL THR ASP CYS SER GLY ASN PHE CYS LEU PHE ARG SER SEQRES 49 A 679 GLU THR LYS ASP LEU LEU PHE ARG ASP ASP THR VAL CYS SEQRES 50 A 679 LEU ALA LYS LEU HIS ASP ARG ASN THR TYR GLU LYS TYR SEQRES 51 A 679 LEU GLY GLU GLU TYR VAL LYS ALA VAL GLY ASN LEU ARG SEQRES 52 A 679 LYS CYS SER THR SER SER LEU LEU GLU ALA CYS THR PHE SEQRES 53 A 679 ARG ARG PRO HET FE A 701 1 HET MLI A 702 7 HET GOL A 703 6 HETNAM FE FE (III) ION HETNAM MLI MALONATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 FE FE 3+ FORMUL 3 MLI C3 H2 O4 2- FORMUL 4 GOL C3 H8 O3 FORMUL 5 HOH *230(H2 O) HELIX 1 AA1 SER A 12 ILE A 30 1 19 HELIX 2 AA2 SER A 44 ALA A 54 1 11 HELIX 3 AA3 ASP A 63 LEU A 72 1 10 HELIX 4 AA4 GLN A 108 LEU A 112 5 5 HELIX 5 AA5 TRP A 128 TYR A 136 1 9 HELIX 6 AA6 CYS A 137 LEU A 139 5 3 HELIX 7 AA7 PRO A 145 ASN A 152 1 8 HELIX 8 AA8 PHE A 167 GLN A 172 5 6 HELIX 9 AA9 PHE A 186 ASP A 197 1 12 HELIX 10 AB1 SER A 208 LEU A 214 1 7 HELIX 11 AB2 ASN A 216 ASP A 221 1 6 HELIX 12 AB3 ASP A 236 CYS A 241 5 6 HELIX 13 AB4 LYS A 259 GLY A 275 1 17 HELIX 14 AB5 ASP A 310 GLY A 316 1 7 HELIX 15 AB6 GLY A 316 GLY A 329 1 14 HELIX 16 AB7 SER A 348 VAL A 363 1 16 HELIX 17 AB8 THR A 373 ASN A 383 1 11 HELIX 18 AB9 ASP A 392 CYS A 402 1 11 HELIX 19 AC1 TRP A 460 ASN A 472 1 13 HELIX 20 AC2 ARG A 475 PHE A 479 5 5 HELIX 21 AC3 SER A 492 LYS A 496 5 5 HELIX 22 AC4 SER A 501 LEU A 505 5 5 HELIX 23 AC5 TYR A 515 LYS A 527 1 13 HELIX 24 AC6 GLN A 536 ASN A 541 1 6 HELIX 25 AC7 ASP A 548 ASN A 553 1 6 HELIX 26 AC8 ASN A 555 LYS A 557 5 3 HELIX 27 AC9 GLU A 572 CYS A 577 5 6 HELIX 28 AD1 ARG A 590 ASP A 592 5 3 HELIX 29 AD2 LYS A 593 GLY A 609 1 17 HELIX 30 AD3 THR A 646 GLY A 652 1 7 HELIX 31 AD4 GLY A 652 LYS A 664 1 13 HELIX 32 AD5 SER A 668 ARG A 678 1 11 SHEET 1 AA1 2 THR A 5 ALA A 10 0 SHEET 2 AA1 2 SER A 36 LYS A 41 1 O VAL A 40 N ALA A 10 SHEET 1 AA2 4 VAL A 60 LEU A 62 0 SHEET 2 AA2 4 THR A 250 ARG A 254 -1 O THR A 250 N LEU A 62 SHEET 3 AA2 4 LEU A 77 PHE A 84 -1 N VAL A 81 O VAL A 251 SHEET 4 AA2 4 GLY A 301 LYS A 304 -1 O LEU A 303 N ALA A 82 SHEET 1 AA3 6 GLY A 156 CYS A 158 0 SHEET 2 AA3 6 LYS A 116 HIS A 119 1 N HIS A 119 O CYS A 158 SHEET 3 AA3 6 VAL A 202 LYS A 206 1 O VAL A 202 N CYS A 118 SHEET 4 AA3 6 PHE A 94 LYS A 102 -1 N VAL A 100 O ALA A 203 SHEET 5 AA3 6 TYR A 223 LEU A 226 -1 O GLU A 224 N VAL A 101 SHEET 6 AA3 6 ARG A 232 PRO A 234 -1 O LYS A 233 N LEU A 225 SHEET 1 AA4 5 GLY A 156 CYS A 158 0 SHEET 2 AA4 5 LYS A 116 HIS A 119 1 N HIS A 119 O CYS A 158 SHEET 3 AA4 5 VAL A 202 LYS A 206 1 O VAL A 202 N CYS A 118 SHEET 4 AA4 5 PHE A 94 LYS A 102 -1 N VAL A 100 O ALA A 203 SHEET 5 AA4 5 ALA A 244 PRO A 247 -1 O VAL A 246 N TYR A 95 SHEET 1 AA5 2 VAL A 342 ALA A 346 0 SHEET 2 AA5 2 ILE A 366 SER A 370 1 O VAL A 369 N ALA A 346 SHEET 1 AA6 4 MET A 389 LEU A 391 0 SHEET 2 AA6 4 ALA A 586 THR A 589 -1 O VAL A 588 N MET A 389 SHEET 3 AA6 4 VAL A 405 ASN A 411 -1 N LEU A 408 O VAL A 587 SHEET 4 AA6 4 CYS A 637 LYS A 640 -1 O ALA A 639 N ALA A 409 SHEET 1 AA7 6 GLU A 482 CYS A 484 0 SHEET 2 AA7 6 LYS A 448 HIS A 451 1 N HIS A 451 O CYS A 484 SHEET 3 AA7 6 VAL A 530 LYS A 534 1 O PHE A 532 N CYS A 450 SHEET 4 AA7 6 PHE A 427 LYS A 433 -1 N VAL A 431 O ALA A 531 SHEET 5 AA7 6 TYR A 559 LEU A 562 -1 O GLU A 560 N VAL A 432 SHEET 6 AA7 6 ARG A 568 PRO A 570 -1 O LYS A 569 N LEU A 561 SHEET 1 AA8 5 GLU A 482 CYS A 484 0 SHEET 2 AA8 5 LYS A 448 HIS A 451 1 N HIS A 451 O CYS A 484 SHEET 3 AA8 5 VAL A 530 LYS A 534 1 O PHE A 532 N CYS A 450 SHEET 4 AA8 5 PHE A 427 LYS A 433 -1 N VAL A 431 O ALA A 531 SHEET 5 AA8 5 ALA A 580 ARG A 581 -1 O ALA A 580 N ALA A 428 SSBOND 1 CYS A 9 CYS A 48 1555 1555 2.10 SSBOND 2 CYS A 19 CYS A 39 1555 1555 2.10 SSBOND 3 CYS A 118 CYS A 194 1555 1555 2.07 SSBOND 4 CYS A 137 CYS A 331 1555 1555 2.07 SSBOND 5 CYS A 158 CYS A 174 1555 1555 2.03 SSBOND 6 CYS A 161 CYS A 179 1555 1555 2.00 SSBOND 7 CYS A 171 CYS A 177 1555 1555 2.04 SSBOND 8 CYS A 227 CYS A 241 1555 1555 2.04 SSBOND 9 CYS A 339 CYS A 596 1555 1555 2.05 SSBOND 10 CYS A 345 CYS A 377 1555 1555 2.05 SSBOND 11 CYS A 355 CYS A 368 1555 1555 2.05 SSBOND 12 CYS A 402 CYS A 674 1555 1555 2.06 SSBOND 13 CYS A 450 CYS A 523 1555 1555 2.05 SSBOND 14 CYS A 474 CYS A 665 1555 1555 2.05 SSBOND 15 CYS A 484 CYS A 498 1555 1555 2.06 SSBOND 16 CYS A 495 CYS A 506 1555 1555 2.04 SSBOND 17 CYS A 563 CYS A 577 1555 1555 2.04 LINK OD1 ASP A 392 FE FE A 701 1555 1555 2.55 LINK OH TYR A 426 FE FE A 701 1555 1555 1.99 LINK OH TYR A 517 FE FE A 701 1555 1555 1.99 LINK NE2 HIS A 585 FE FE A 701 1555 1555 1.97 LINK FE FE A 701 O7 MLI A 702 1555 1555 1.83 LINK FE FE A 701 O9 MLI A 702 1555 1555 1.83 CISPEP 1 ALA A 73 PRO A 74 0 4.43 CISPEP 2 GLU A 141 PRO A 142 0 0.39 CISPEP 3 LYS A 144 PRO A 145 0 -1.38 CISPEP 4 GLY A 258 LYS A 259 0 1.13 SITE 1 AC1 5 ASP A 392 TYR A 426 TYR A 517 HIS A 585 SITE 2 AC1 5 MLI A 702 SITE 1 AC2 10 ASP A 392 TYR A 426 THR A 452 ARG A 456 SITE 2 AC2 10 ALA A 458 GLY A 459 TYR A 517 HIS A 585 SITE 3 AC2 10 FE A 701 HOH A 893 SITE 1 AC3 7 CYS A 227 LEU A 228 ASP A 229 HIS A 242 SITE 2 AC3 7 LYS A 591 HOH A 937 HOH A 970 CRYST1 137.056 156.649 107.162 90.00 90.00 90.00 C 2 2 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.007296 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006384 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009332 0.00000