HEADER HYDROLASE/HYDROLASE INHIBITOR 28-JAN-16 5HVH TITLE CRYSTAL STRUCTURE OF THROMBIN-ACTIVATABLE FIBRINOLYSIS INHIBITOR IN TITLE 2 COMPLEX WITH TWO INHIBITORY NANOBODIES COMPND MOL_ID: 1; COMPND 2 MOLECULE: CARBOXYPEPTIDASE B2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CARBOXYPEPTIDASE U,CPU,PLASMA CARBOXYPEPTIDASE B,PCPB, COMPND 5 THROMBIN-ACTIVABLE FIBRINOLYSIS INHIBITOR,TAFI; COMPND 6 EC: 3.4.17.20; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: VHH-A204; COMPND 11 CHAIN: B; COMPND 12 SYNONYM: NANOBODY; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: VHH-I83; COMPND 16 CHAIN: C; COMPND 17 SYNONYM: NANOBODY; COMPND 18 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: CPB2; SOURCE 6 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: M5; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PPIC9; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: VICUGNA PACOS; SOURCE 13 ORGANISM_COMMON: ALPACA; SOURCE 14 ORGANISM_TAXID: 30538; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 EXPRESSION_SYSTEM_STRAIN: WK6; SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 19 EXPRESSION_SYSTEM_PLASMID: PHEN6; SOURCE 20 MOL_ID: 3; SOURCE 21 ORGANISM_SCIENTIFIC: VICUGNA PACOS; SOURCE 22 ORGANISM_COMMON: ALPACA; SOURCE 23 ORGANISM_TAXID: 30538; SOURCE 24 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 25 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 26 EXPRESSION_SYSTEM_STRAIN: WK6; SOURCE 27 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 28 EXPRESSION_SYSTEM_PLASMID: PHEN6 KEYWDS PROCARBOXYPEPTIDASE U, THROMBIN-ACTIVATABLE FIBRINOLYSIS INHIBITOR, KEYWDS 2 TAFI, PROCARBOXYPEPTIDASE R, PLASMA PROCARBOXYPEPTIDASE B, NANOBODY, KEYWDS 3 ANTIBODY FRAGMENT, PROTEIN COMPLEX, HYDROLASE/HYDROLASE INHIBITOR, KEYWDS 4 HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR X.ZHOU,S.D.WEEKS,S.V.STRELKOV,P.J.DECLERCK REVDAT 4 29-JUL-20 5HVH 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 31-AUG-16 5HVH 1 JRNL REVDAT 2 03-AUG-16 5HVH 1 JRNL REVDAT 1 22-JUN-16 5HVH 0 JRNL AUTH X.ZHOU,S.D.WEEKS,P.AMELOOT,N.CALLEWAERT,S.V.STRELKOV, JRNL AUTH 2 P.J.DECLERCK JRNL TITL ELUCIDATION OF THE MOLECULAR MECHANISMS OF TWO NANOBODIES JRNL TITL 2 THAT INHIBIT THROMBIN-ACTIVATABLE FIBRINOLYSIS INHIBITOR JRNL TITL 3 ACTIVATION AND ACTIVATED THROMBIN-ACTIVATABLE FIBRINOLYSIS JRNL TITL 4 INHIBITOR ACTIVITY. JRNL REF J.THROMB.HAEMOST. V. 14 1629 2016 JRNL REFN ESSN 1538-7836 JRNL PMID 27279497 JRNL DOI 10.1111/JTH.13381 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER-TNT 2.10.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SMART,VONRHEIN,WOMACK, REMARK 3 : MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.25 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 34259 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) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.202 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.660 REMARK 3 FREE R VALUE TEST SET COUNT : 1938 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 17 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 3.09 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2912 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2541 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2740 REMARK 3 BIN R VALUE (WORKING SET) : 0.2526 REMARK 3 BIN FREE R VALUE : 0.2778 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.91 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 172 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5061 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 99 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 69.68 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 79.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 17.32750 REMARK 3 B22 (A**2) : 17.32750 REMARK 3 B33 (A**2) : -34.65510 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.372 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.342 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.231 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.349 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.235 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.886 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.880 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 5299 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 7212 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1808 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 124 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 774 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 5299 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 0 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 692 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 6074 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.14 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.16 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 18.06 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: {A|1 - 401} REMARK 3 ORIGIN FOR THE GROUP (A): 25.7784 -82.7970 7.9342 REMARK 3 T TENSOR REMARK 3 T11: -0.2007 T22: -0.0242 REMARK 3 T33: -0.1580 T12: -0.0398 REMARK 3 T13: -0.0207 T23: 0.0460 REMARK 3 L TENSOR REMARK 3 L11: 2.4014 L22: 1.5395 REMARK 3 L33: 1.7957 L12: -0.2566 REMARK 3 L13: 0.8985 L23: 0.2504 REMARK 3 S TENSOR REMARK 3 S11: -0.0968 S12: 0.0409 S13: 0.1365 REMARK 3 S21: 0.0252 S22: 0.0687 S23: 0.0422 REMARK 3 S31: -0.1872 S32: -0.0747 S33: 0.0281 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: {B|3 - 122} REMARK 3 ORIGIN FOR THE GROUP (A): 8.5996 -46.4509 14.9450 REMARK 3 T TENSOR REMARK 3 T11: 0.0543 T22: -0.0950 REMARK 3 T33: 0.3040 T12: 0.2844 REMARK 3 T13: -0.1417 T23: -0.0585 REMARK 3 L TENSOR REMARK 3 L11: 2.7804 L22: 5.5350 REMARK 3 L33: 0.0000 L12: -4.0057 REMARK 3 L13: -1.6578 L23: 1.2067 REMARK 3 S TENSOR REMARK 3 S11: -0.1830 S12: 0.0756 S13: 0.4030 REMARK 3 S21: 0.2486 S22: 0.3409 S23: 0.3905 REMARK 3 S31: -0.4421 S32: -0.3228 S33: -0.1578 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: {C|2 - 119} REMARK 3 ORIGIN FOR THE GROUP (A): 5.0868 -96.0164 -20.5940 REMARK 3 T TENSOR REMARK 3 T11: -0.1906 T22: 0.1634 REMARK 3 T33: -0.2356 T12: -0.0026 REMARK 3 T13: -0.0591 T23: -0.1297 REMARK 3 L TENSOR REMARK 3 L11: 4.5520 L22: 3.1830 REMARK 3 L33: 5.3799 L12: 1.6324 REMARK 3 L13: 2.5206 L23: 1.4550 REMARK 3 S TENSOR REMARK 3 S11: -0.1129 S12: 0.5590 S13: -0.3697 REMARK 3 S21: -0.5291 S22: -0.1307 S23: 0.2688 REMARK 3 S31: 0.1218 S32: -0.1377 S33: 0.2435 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5HVH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 29-JAN-16. REMARK 100 THE DEPOSITION ID IS D_1000217776. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-JUN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9801 REMARK 200 MONOCHROMATOR : CHANNEL CUT CRYOGENICALLY COOLED REMARK 200 MONOCHROMATOR CRYSTAL REMARK 200 OPTICS : KIRKPATRICK-BAEZ PAIR OF BI REMARK 200 -MORPH MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.3.11 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34292 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 49.250 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 21.90 REMARK 200 R MERGE (I) : 0.26600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.15 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 22.40 REMARK 200 R MERGE FOR SHELL (I) : 1.78500 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: 4P10 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 78.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM ACETATE TRIHYDRATE, 3.0 M REMARK 280 SODIUM CHLORIDE, PH 4.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 62 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+2/3 REMARK 290 6555 X-Y,X,Z+1/3 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+2/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 98.34133 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 49.17067 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 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 98.34133 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 49.17067 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 98.34133 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 49.17067 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 98.34133 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 49.17067 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 B 1 REMARK 465 VAL B 2 REMARK 465 HIS B 123 REMARK 465 HIS B 124 REMARK 465 HIS B 125 REMARK 465 HIS B 126 REMARK 465 HIS B 127 REMARK 465 HIS B 128 REMARK 465 GLN C 1 REMARK 465 HIS C 120 REMARK 465 HIS C 121 REMARK 465 HIS C 122 REMARK 465 HIS C 123 REMARK 465 HIS C 124 REMARK 465 HIS C 125 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 212 -46.32 -130.67 REMARK 500 SER A 291 -10.68 128.45 REMARK 500 ARG A 302 46.11 -88.39 REMARK 500 CYS A 305 102.64 67.14 REMARK 500 HIS A 308 76.70 -65.64 REMARK 500 ASN A 328 12.76 80.94 REMARK 500 ASP A 366 -139.99 -109.84 REMARK 500 LEU A 373 54.52 -96.48 REMARK 500 VAL B 48 -61.09 -107.27 REMARK 500 LYS B 64 -114.81 43.80 REMARK 500 VAL C 48 -64.28 -108.71 REMARK 500 ASP C 107 95.81 -162.55 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 ZN A 508 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 159 ND1 REMARK 620 2 GLU A 162 OE1 105.5 REMARK 620 3 GLU A 162 OE2 89.4 54.5 REMARK 620 4 HIS A 288 ND1 91.4 85.5 138.5 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5HVF RELATED DB: PDB REMARK 900 5HVF IS A BINARY COMPLEX CONTAINING THE SAME TWO PROTEINS (TAFI, REMARK 900 VHH-I83) AS IN THIS TRIPLE COMPLEX STRUCTURE. REMARK 900 RELATED ID: 5HVG RELATED DB: PDB REMARK 900 5HVG IS A BINARY COMPLEX CONTAINING THE SAME TWO PROTEINS (TAFI, REMARK 900 VHH-A204) AS IN THIS TRIPLE COMPLEX STRUCTURE. DBREF 5HVH A 1 401 UNP Q96IY4 CBPB2_HUMAN 23 423 DBREF 5HVH B 1 128 PDB 5HVH 5HVH 1 128 DBREF 5HVH C 1 125 PDB 5HVH 5HVH 1 125 SEQADV 5HVH CYS A 305 UNP Q96IY4 SER 327 ENGINEERED MUTATION SEQADV 5HVH ILE A 329 UNP Q96IY4 THR 351 ENGINEERED MUTATION SEQADV 5HVH TYR A 333 UNP Q96IY4 HIS 355 ENGINEERED MUTATION SEQADV 5HVH GLN A 335 UNP Q96IY4 HIS 357 ENGINEERED MUTATION SEQRES 1 A 401 PHE GLN SER GLY GLN VAL LEU ALA ALA LEU PRO ARG THR SEQRES 2 A 401 SER ARG GLN VAL GLN VAL LEU GLN ASN LEU THR THR THR SEQRES 3 A 401 TYR GLU ILE VAL LEU TRP GLN PRO VAL THR ALA ASP LEU SEQRES 4 A 401 ILE VAL LYS LYS LYS GLN VAL HIS PHE PHE VAL ASN ALA SEQRES 5 A 401 SER ASP VAL ASP ASN VAL LYS ALA HIS LEU ASN VAL SER SEQRES 6 A 401 GLY ILE PRO CYS SER VAL LEU LEU ALA ASP VAL GLU ASP SEQRES 7 A 401 LEU ILE GLN GLN GLN ILE SER ASN ASP THR VAL SER PRO SEQRES 8 A 401 ARG ALA SER ALA SER TYR TYR GLU GLN TYR HIS SER LEU SEQRES 9 A 401 ASN GLU ILE TYR SER TRP ILE GLU PHE ILE THR GLU ARG SEQRES 10 A 401 HIS PRO ASP MET LEU THR LYS ILE HIS ILE GLY SER SER SEQRES 11 A 401 PHE GLU LYS TYR PRO LEU TYR VAL LEU LYS VAL SER GLY SEQRES 12 A 401 LYS GLU GLN ALA ALA LYS ASN ALA ILE TRP ILE ASP CYS SEQRES 13 A 401 GLY ILE HIS ALA ARG GLU TRP ILE SER PRO ALA PHE CYS SEQRES 14 A 401 LEU TRP PHE ILE GLY HIS ILE THR GLN PHE TYR GLY ILE SEQRES 15 A 401 ILE GLY GLN TYR THR ASN LEU LEU ARG LEU VAL ASP PHE SEQRES 16 A 401 TYR VAL MET PRO VAL VAL ASN VAL ASP GLY TYR ASP TYR SEQRES 17 A 401 SER TRP LYS LYS ASN ARG MET TRP ARG LYS ASN ARG SER SEQRES 18 A 401 PHE TYR ALA ASN ASN HIS CYS ILE GLY THR ASP LEU ASN SEQRES 19 A 401 ARG ASN PHE ALA SER LYS HIS TRP CYS GLU GLU GLY ALA SEQRES 20 A 401 SER SER SER SER CYS SER GLU THR TYR CYS GLY LEU TYR SEQRES 21 A 401 PRO GLU SER GLU PRO GLU VAL LYS ALA VAL ALA SER PHE SEQRES 22 A 401 LEU ARG ARG ASN ILE ASN GLN ILE LYS ALA TYR ILE SER SEQRES 23 A 401 MET HIS SER TYR SER GLN HIS ILE VAL PHE PRO TYR SER SEQRES 24 A 401 TYR THR ARG SER LYS CYS LYS ASP HIS GLU GLU LEU SER SEQRES 25 A 401 LEU VAL ALA SER GLU ALA VAL ARG ALA ILE GLU LYS ILE SEQRES 26 A 401 SER LYS ASN ILE ARG TYR THR TYR GLY GLN GLY SER GLU SEQRES 27 A 401 THR LEU TYR LEU ALA PRO GLY GLY GLY ASP ASP TRP ILE SEQRES 28 A 401 TYR ASP LEU GLY ILE LYS TYR SER PHE THR ILE GLU LEU SEQRES 29 A 401 ARG ASP THR GLY THR TYR GLY PHE LEU LEU PRO GLU ARG SEQRES 30 A 401 TYR ILE LYS PRO THR CYS ARG GLU ALA PHE ALA ALA VAL SEQRES 31 A 401 SER LYS ILE ALA TRP HIS VAL ILE ARG ASN VAL SEQRES 1 B 128 GLN VAL GLN LEU GLN GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 B 128 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 B 128 SER ILE PHE SER GLY ASN ALA MET GLY TRP TYR ARG GLN SEQRES 4 B 128 ALA PRO GLY LYS GLN ARG GLU LEU VAL ALA ALA ILE THR SEQRES 5 B 128 SER GLY GLY SER THR ASP TYR ALA ASP SER VAL LYS GLY SEQRES 6 B 128 ARG PHE THR ILE SER ARG ASP ASN ALA LYS ASN THR VAL SEQRES 7 B 128 TYR LEU GLN MET ASN SER LEU LYS PRO GLU ASP THR ALA SEQRES 8 B 128 VAL TYR TYR CYS HIS VAL ASP PRO ARG PRO TRP GLY TYR SEQRES 9 B 128 ASP VAL THR ASP TYR ASP TYR TRP GLY GLN GLY THR GLN SEQRES 10 B 128 VAL THR VAL SER SER HIS HIS HIS HIS HIS HIS SEQRES 1 C 125 GLN VAL GLN LEU GLN GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 C 125 ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 C 125 SER ILE PHE SER PRO ASN ALA MET GLY TRP TYR ARG GLN SEQRES 4 C 125 ALA PRO GLY LYS GLU ARG GLU LEU VAL ALA ALA ARG THR SEQRES 5 C 125 ASN VAL GLY SER THR TYR ALA ASP SER VAL LYS GLY ARG SEQRES 6 C 125 PHE THR VAL SER ARG ASP ASN ALA LYS ASN THR VAL TYR SEQRES 7 C 125 LEU GLN MET ASN SER LEU LYS PRO GLU ASP THR ALA VAL SEQRES 8 C 125 TYR TYR CYS ASN ALA TRP GLY GLN ASP GLY TRP LEU GLY SEQRES 9 C 125 GLN TYR ASP TYR TRP GLY GLN GLY THR GLN VAL THR VAL SEQRES 10 C 125 SER SER HIS HIS HIS HIS HIS HIS HET NAG D 1 14 HET NAG D 2 14 HET NAG E 1 14 HET NAG E 2 14 HET NAG F 1 14 HET NAG F 2 14 HET NAG A 507 14 HET ZN A 508 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM ZN ZINC ION FORMUL 4 NAG 7(C8 H15 N O6) FORMUL 8 ZN ZN 2+ HELIX 1 AA1 THR A 13 TYR A 27 1 15 HELIX 2 AA2 THR A 36 ILE A 40 5 5 HELIX 3 AA3 ASP A 54 SER A 65 1 12 HELIX 4 AA4 ASP A 75 ASN A 86 1 12 HELIX 5 AA5 SER A 94 GLN A 100 5 7 HELIX 6 AA6 SER A 103 HIS A 118 1 16 HELIX 7 AA7 TRP A 163 TYR A 180 1 18 HELIX 8 AA8 ILE A 183 LEU A 192 1 10 HELIX 9 AA9 ASN A 202 LYS A 212 1 11 HELIX 10 AB1 ASP A 232 ASN A 236 5 5 HELIX 11 AB2 GLU A 264 ASN A 277 1 14 HELIX 12 AB3 PRO A 297 ARG A 302 1 6 HELIX 13 AB4 GLU A 309 SER A 326 1 18 HELIX 14 AB5 GLY A 346 LEU A 354 1 9 HELIX 15 AB6 PRO A 375 ARG A 377 5 3 HELIX 16 AB7 TYR A 378 VAL A 401 1 24 HELIX 17 AB8 SER B 25 SER B 30 1 6 HELIX 18 AB9 LYS B 86 THR B 90 5 5 HELIX 19 AC1 PRO B 99 GLY B 103 5 5 HELIX 20 AC2 ASP B 105 TYR B 109 5 5 HELIX 21 AC3 LYS C 85 THR C 89 5 5 SHEET 1 AA1 4 ILE A 29 GLN A 33 0 SHEET 2 AA1 4 VAL A 46 ASN A 51 -1 O PHE A 49 N VAL A 30 SHEET 3 AA1 4 GLY A 4 ALA A 9 -1 N ALA A 9 O VAL A 46 SHEET 4 AA1 4 CYS A 69 LEU A 73 -1 O SER A 70 N ALA A 8 SHEET 1 AA2 8 LEU A 122 SER A 129 0 SHEET 2 AA2 8 PRO A 135 VAL A 141 -1 O VAL A 138 N ILE A 125 SHEET 3 AA2 8 VAL A 193 MET A 198 -1 O VAL A 197 N LEU A 139 SHEET 4 AA2 8 ASN A 150 ASP A 155 1 N ILE A 154 O TYR A 196 SHEET 5 AA2 8 ILE A 281 SER A 289 1 O MET A 287 N ASP A 155 SHEET 6 AA2 8 TYR A 358 LEU A 364 1 O ILE A 362 N HIS A 288 SHEET 7 AA2 8 HIS A 293 VAL A 295 -1 N HIS A 293 O GLU A 363 SHEET 8 AA2 8 THR A 332 TYR A 333 1 O THR A 332 N ILE A 294 SHEET 1 AA3 4 LEU B 4 SER B 7 0 SHEET 2 AA3 4 LEU B 18 ALA B 24 -1 O SER B 21 N SER B 7 SHEET 3 AA3 4 THR B 77 MET B 82 -1 O MET B 82 N LEU B 18 SHEET 4 AA3 4 PHE B 67 ASP B 72 -1 N SER B 70 O TYR B 79 SHEET 1 AA4 6 GLY B 10 VAL B 12 0 SHEET 2 AA4 6 THR B 116 VAL B 120 1 O THR B 119 N VAL B 12 SHEET 3 AA4 6 ALA B 91 VAL B 97 -1 N TYR B 93 O THR B 116 SHEET 4 AA4 6 MET B 34 GLN B 39 -1 N TYR B 37 O TYR B 94 SHEET 5 AA4 6 ARG B 45 ILE B 51 -1 O VAL B 48 N TRP B 36 SHEET 6 AA4 6 THR B 57 TYR B 59 -1 O ASP B 58 N ALA B 50 SHEET 1 AA5 4 GLN C 3 SER C 7 0 SHEET 2 AA5 4 LEU C 18 SER C 25 -1 O ALA C 23 N GLN C 5 SHEET 3 AA5 4 THR C 76 MET C 81 -1 O MET C 81 N LEU C 18 SHEET 4 AA5 4 PHE C 66 ASP C 71 -1 N THR C 67 O GLN C 80 SHEET 1 AA6 6 GLY C 10 GLN C 13 0 SHEET 2 AA6 6 THR C 113 SER C 118 1 O THR C 116 N GLY C 10 SHEET 3 AA6 6 ALA C 90 ASP C 100 -1 N TYR C 92 O THR C 113 SHEET 4 AA6 6 ALA C 33 GLN C 39 -1 N TYR C 37 O TYR C 93 SHEET 5 AA6 6 GLU C 46 THR C 52 -1 O ALA C 49 N TRP C 36 SHEET 6 AA6 6 SER C 56 TYR C 58 -1 O THR C 57 N ALA C 50 SHEET 1 AA7 4 GLY C 10 GLN C 13 0 SHEET 2 AA7 4 THR C 113 SER C 118 1 O THR C 116 N GLY C 10 SHEET 3 AA7 4 ALA C 90 ASP C 100 -1 N TYR C 92 O THR C 113 SHEET 4 AA7 4 GLY C 104 TRP C 109 -1 O TYR C 108 N ALA C 96 SSBOND 1 CYS A 156 CYS A 169 1555 1555 2.03 SSBOND 2 CYS A 228 CYS A 252 1555 1555 2.08 SSBOND 3 CYS A 243 CYS A 257 1555 1555 2.06 SSBOND 4 CYS B 22 CYS B 95 1555 1555 2.05 SSBOND 5 CYS C 22 CYS C 94 1555 1555 2.02 LINK ND2 ASN A 22 C1 NAG D 1 1555 1555 1.43 LINK ND2 ASN A 51 C1 NAG E 1 1555 1555 1.43 LINK ND2 ASN A 63 C1 NAG F 1 1555 1555 1.43 LINK ND2 ASN A 86 C1 NAG A 507 1555 1555 1.44 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.43 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.44 LINK O4 NAG F 1 C1 NAG F 2 1555 1555 1.43 LINK ND1 HIS A 159 ZN ZN A 508 1555 1555 2.15 LINK OE1 GLU A 162 ZN ZN A 508 1555 1555 2.29 LINK OE2 GLU A 162 ZN ZN A 508 1555 1555 2.54 LINK ND1 HIS A 288 ZN ZN A 508 1555 1555 2.15 CISPEP 1 GLN A 33 PRO A 34 0 -4.16 CISPEP 2 SER A 289 TYR A 290 0 -6.43 CISPEP 3 ARG A 365 ASP A 366 0 -1.29 CRYST1 196.986 196.986 147.512 90.00 90.00 120.00 P 62 2 2 12 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 0.005077 0.002931 0.000000 0.00000 SCALE2 0.000000 0.005862 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006779 0.00000 MASTER 371 0 8 21 36 0 0 6 0 0 0 51 END