HEADER PROTEIN BINDING/PROTEIN FIBRIL 24-SEP-13 4MVK TITLE CRYSTAL STRUCTURE OF AN ENGINEERED LIPOCALIN (ANTICALIN US7) IN TITLE 2 COMPLEX WITH THE ALZHEIMER AMYLOID PEPTIDE FRAGMENT VFFAED COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEUTROPHIL GELATINASE-ASSOCIATED LIPOCALIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 21-198; COMPND 5 SYNONYM: NGAL, 25 KDA ALPHA-2-MICROGLOBULIN-RELATED SUBUNIT OF MMP-9, COMPND 6 LIPOCALIN-2, ONCOGENE 24P3, SIDEROCALIN LCN2, P25; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: AMYLOID PEPTIDE FRAGMENT VFFAED; COMPND 11 CHAIN: B; COMPND 12 FRAGMENT: UNP RESIDUES 689-694; COMPND 13 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: ENGINEERED VARIANT US7, HNL, LCN2, LCN2 (NGAL_HUMAN), NGAL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: TG1(F-); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNGAL98-US7; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 14 ORGANISM_COMMON: HUMAN; SOURCE 15 ORGANISM_TAXID: 9606; SOURCE 16 OTHER_DETAILS: THE ABETA HEXAPEPTIDE FRAGMENT VFFAED WAS SYNTHESIZED SOURCE 17 WITH AN ACETYLATED N- AND AN AMIDATED C-TERMINUS. KEYWDS BETA-BARREL, ENGINEERED LIPOCALIN, BINDING PROTEIN, PROTEIN BINDING- KEYWDS 2 PROTEIN FIBRIL COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.EICHINGER,A.SKERRA REVDAT 4 20-SEP-23 4MVK 1 SEQADV LINK REVDAT 3 15-JUN-16 4MVK 1 JRNL REVDAT 2 20-APR-16 4MVK 1 JRNL REVDAT 1 12-AUG-15 4MVK 0 JRNL AUTH S.RAUTH,D.HINZ,M.BORGER,M.UHRIG,M.MAYHAUS,M.RIEMENSCHNEIDER, JRNL AUTH 2 A.SKERRA JRNL TITL HIGH-AFFINITY ANTICALINS WITH AGGREGATION-BLOCKING ACTIVITY JRNL TITL 2 DIRECTED AGAINST THE ALZHEIMER BETA-AMYLOID PEPTIDE. JRNL REF BIOCHEM.J. V. 473 1563 2016 JRNL REFN ISSN 0264-6021 JRNL PMID 27029347 JRNL DOI 10.1042/BCJ20160114 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.57 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 30226 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) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.186 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1530 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1915 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.2390 REMARK 3 BIN FREE R VALUE SET COUNT : 110 REMARK 3 BIN FREE R VALUE : 0.2610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1441 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 157 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.60000 REMARK 3 B22 (A**2) : -0.26000 REMARK 3 B33 (A**2) : -1.34000 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): 0.068 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.067 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.041 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.254 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1477 ; 0.023 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1995 ; 2.104 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 175 ; 8.078 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 71 ;35.710 ;23.803 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 256 ;14.337 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;18.517 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 213 ; 0.178 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1124 ; 0.014 ; 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 : 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 7 A 177 REMARK 3 ORIGIN FOR THE GROUP (A): -19.1707 -2.5084 7.9208 REMARK 3 T TENSOR REMARK 3 T11: 0.0250 T22: 0.0137 REMARK 3 T33: 0.0046 T12: -0.0024 REMARK 3 T13: -0.0056 T23: 0.0019 REMARK 3 L TENSOR REMARK 3 L11: 1.2982 L22: 1.4536 REMARK 3 L33: 1.5320 L12: 0.1708 REMARK 3 L13: -0.1902 L23: 0.0892 REMARK 3 S TENSOR REMARK 3 S11: -0.0175 S12: 0.0555 S13: 0.0118 REMARK 3 S21: -0.0840 S22: -0.0037 S23: 0.0771 REMARK 3 S31: -0.0439 S32: -0.0035 S33: 0.0212 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 17 B 24 REMARK 3 ORIGIN FOR THE GROUP (A): -25.5187 0.4475 4.6442 REMARK 3 T TENSOR REMARK 3 T11: 0.0620 T22: 0.0363 REMARK 3 T33: 0.0447 T12: 0.0049 REMARK 3 T13: -0.0294 T23: 0.0170 REMARK 3 L TENSOR REMARK 3 L11: 5.3023 L22: 8.6273 REMARK 3 L33: 4.0056 L12: -1.3949 REMARK 3 L13: -4.4037 L23: 2.8512 REMARK 3 S TENSOR REMARK 3 S11: 0.0395 S12: 0.1976 S13: 0.2916 REMARK 3 S21: -0.3519 S22: 0.1081 S23: 0.3805 REMARK 3 S31: -0.1106 S32: -0.1354 S33: -0.1477 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: NULL REMARK 4 REMARK 4 4MVK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1000082419. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-MAY-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91841 REMARK 200 MONOCHROMATOR : SI 111 CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30318 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 42.571 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07800 REMARK 200 FOR THE DATA SET : 13.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.58 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 0.34800 REMARK 200 R SYM FOR SHELL (I) : 0.34800 REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1L6M REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 27 % (W/V) PEG 8000, 100 MM MES, PH REMARK 280 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 25.48500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 30.61500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.61500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 30.61500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.48500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.61500 REMARK 290 SMTRY3 4 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: 1520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 6 REMARK 465 GLY A 178 REMARK 465 SER A 179 REMARK 465 ALA A 180 REMARK 465 TRP A 181 REMARK 465 SER A 182 REMARK 465 HIS A 183 REMARK 465 PRO A 184 REMARK 465 GLN A 185 REMARK 465 PHE A 186 REMARK 465 GLU A 187 REMARK 465 LYS A 188 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 GLU A 143 CD GLU A 143 OE2 -0.069 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 24 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ARG A 81 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 PHE A 92 CB - CG - CD1 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 SER A 41 -132.56 51.92 REMARK 500 LEU A 42 76.08 93.68 REMARK 500 ASP A 45 54.06 -95.05 REMARK 500 LYS A 74 -27.43 79.92 REMARK 500 SER A 99 105.35 -24.42 REMARK 500 PRO A 101 -80.46 -3.06 REMARK 500 ARG A 103 -145.03 -160.20 REMARK 500 TYR A 115 -38.89 71.87 REMARK 500 GLN A 117 -61.76 -137.45 REMARK 500 CYS A 175 -39.76 73.36 REMARK 500 PHE B 19 77.35 -107.88 REMARK 500 GLU B 22 -140.98 63.38 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 LYS A 40 SER A 41 142.46 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4MVI RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AN ENGINEERED LIPOCALIN (ANTICALIN US7) IN REMARK 900 COMPLEX WITH THE ALZHEIMER AMYLOID PEPTIDE ABETA(1-40 REMARK 900 RELATED ID: 4MVL RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF AN ENGINEERED LIPOCALIN (ANTICALIN H1GA) IN REMARK 900 COMPLEX WITH THE ALZHEIMER AMYLOID PEPTIDE ABETA1-40 DBREF 4MVK A 1 178 UNP P80188 NGAL_HUMAN 21 198 DBREF 4MVK B 18 23 UNP P05067 A4_HUMAN 689 694 SEQADV 4MVK HIS A 28 UNP P80188 GLN 48 ENGINEERED MUTATION SEQADV 4MVK VAL A 36 UNP P80188 LEU 56 ENGINEERED MUTATION SEQADV 4MVK LYS A 40 UNP P80188 ALA 60 ENGINEERED MUTATION SEQADV 4MVK SER A 41 UNP P80188 ILE 61 ENGINEERED MUTATION SEQADV 4MVK TRP A 49 UNP P80188 GLN 69 ENGINEERED MUTATION SEQADV 4MVK GLY A 70 UNP P80188 LEU 90 ENGINEERED MUTATION SEQADV 4MVK GLY A 72 UNP P80188 ARG 92 ENGINEERED MUTATION SEQADV 4MVK THR A 73 UNP P80188 LYS 93 ENGINEERED MUTATION SEQADV 4MVK HIS A 77 UNP P80188 ASP 97 ENGINEERED MUTATION SEQADV 4MVK LYS A 79 UNP P80188 TRP 99 ENGINEERED MUTATION SEQADV 4MVK SER A 87 UNP P80188 CYS 107 ENGINEERED MUTATION SEQADV 4MVK ARG A 96 UNP P80188 ASN 116 ENGINEERED MUTATION SEQADV 4MVK ARG A 100 UNP P80188 TYR 120 ENGINEERED MUTATION SEQADV 4MVK ARG A 103 UNP P80188 LEU 123 ENGINEERED MUTATION SEQADV 4MVK ALA A 106 UNP P80188 TYR 126 ENGINEERED MUTATION SEQADV 4MVK VAL A 125 UNP P80188 LYS 145 ENGINEERED MUTATION SEQADV 4MVK GLN A 127 UNP P80188 SER 147 ENGINEERED MUTATION SEQADV 4MVK SER A 132 UNP P80188 TYR 152 ENGINEERED MUTATION SEQADV 4MVK ASN A 134 UNP P80188 LYS 154 ENGINEERED MUTATION SEQADV 4MVK SER A 179 UNP P80188 EXPRESSION TAG SEQADV 4MVK ALA A 180 UNP P80188 EXPRESSION TAG SEQADV 4MVK TRP A 181 UNP P80188 EXPRESSION TAG SEQADV 4MVK SER A 182 UNP P80188 EXPRESSION TAG SEQADV 4MVK HIS A 183 UNP P80188 EXPRESSION TAG SEQADV 4MVK PRO A 184 UNP P80188 EXPRESSION TAG SEQADV 4MVK GLN A 185 UNP P80188 EXPRESSION TAG SEQADV 4MVK PHE A 186 UNP P80188 EXPRESSION TAG SEQADV 4MVK GLU A 187 UNP P80188 EXPRESSION TAG SEQADV 4MVK LYS A 188 UNP P80188 EXPRESSION TAG SEQADV 4MVK ACE B 17 UNP P05067 EXPRESSION TAG SEQADV 4MVK NH2 B 24 UNP P05067 EXPRESSION TAG SEQRES 1 A 188 GLN ASP SER THR SER ASP LEU ILE PRO ALA PRO PRO LEU SEQRES 2 A 188 SER LYS VAL PRO LEU GLN GLN ASN PHE GLN ASP ASN GLN SEQRES 3 A 188 PHE HIS GLY LYS TRP TYR VAL VAL GLY VAL ALA GLY ASN SEQRES 4 A 188 LYS SER LEU ARG GLU ASP LYS ASP PRO TRP LYS MET TYR SEQRES 5 A 188 ALA THR ILE TYR GLU LEU LYS GLU ASP LYS SER TYR ASN SEQRES 6 A 188 VAL THR SER VAL GLY PHE GLY THR LYS LYS CYS HIS TYR SEQRES 7 A 188 LYS ILE ARG THR PHE VAL PRO GLY SER GLN PRO GLY GLU SEQRES 8 A 188 PHE THR LEU GLY ARG ILE LYS SER ARG PRO GLY ARG THR SEQRES 9 A 188 SER ALA LEU VAL ARG VAL VAL SER THR ASN TYR ASN GLN SEQRES 10 A 188 HIS ALA MET VAL PHE PHE LYS VAL VAL GLN GLN ASN ARG SEQRES 11 A 188 GLU SER PHE ASN ILE THR LEU TYR GLY ARG THR LYS GLU SEQRES 12 A 188 LEU THR SER GLU LEU LYS GLU ASN PHE ILE ARG PHE SER SEQRES 13 A 188 LYS SER LEU GLY LEU PRO GLU ASN HIS ILE VAL PHE PRO SEQRES 14 A 188 VAL PRO ILE ASP GLN CYS ILE ASP GLY SER ALA TRP SER SEQRES 15 A 188 HIS PRO GLN PHE GLU LYS SEQRES 1 B 8 ACE VAL PHE PHE ALA GLU ASP NH2 HET ACE B 17 3 HET NH2 B 24 1 HETNAM ACE ACETYL GROUP HETNAM NH2 AMINO GROUP FORMUL 2 ACE C2 H4 O FORMUL 2 NH2 H2 N FORMUL 3 HOH *157(H2 O) HELIX 1 1 PRO A 12 VAL A 16 5 5 HELIX 2 2 GLN A 23 HIS A 28 1 6 HELIX 3 3 THR A 145 LEU A 159 1 15 HELIX 4 4 PRO A 162 ASN A 164 5 3 SHEET 1 A10 ILE A 166 VAL A 167 0 SHEET 2 A10 GLY A 29 GLY A 38 -1 N VAL A 36 O VAL A 167 SHEET 3 A10 ARG A 130 GLY A 139 -1 O GLY A 139 N TYR A 32 SHEET 4 A10 HIS A 118 GLN A 127 -1 N VAL A 121 O THR A 136 SHEET 5 A10 THR A 104 THR A 113 -1 N ARG A 109 O PHE A 122 SHEET 6 A10 GLU A 91 LEU A 94 -1 N PHE A 92 O VAL A 108 SHEET 7 A10 CYS A 76 PRO A 85 -1 N VAL A 84 O THR A 93 SHEET 8 A10 TYR A 64 PHE A 71 -1 N VAL A 66 O ARG A 81 SHEET 9 A10 ALA A 53 LEU A 58 -1 N ILE A 55 O THR A 67 SHEET 10 A10 GLY A 29 GLY A 38 -1 N GLY A 29 O TYR A 56 SSBOND 1 CYS A 76 CYS A 175 1555 1555 2.10 LINK C ACE B 17 N VAL B 18 1555 1555 1.42 LINK C ASP B 23 N NH2 B 24 1555 1555 1.34 CRYST1 50.970 59.230 61.230 90.00 90.00 90.00 P 21 21 21 4 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 0.019619 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016883 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016332 0.00000