HEADER IMMUNE SYSTEM 19-JUN-14 4UQ3 TITLE CRYSTAL STRUCTURE OF HLA-A0201 IN COMPLEX WITH AN AZOBENZENE- TITLE 2 CONTAINING PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: HLA CLASS I HISTOCOMPATIBILITY ANTIGEN, A-2 ALPHA CHAIN; COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: EXTRACELLULAR DOMAIN, RESIDUES 25-299; COMPND 5 SYNONYM: HLA CLASS I HISTOCOMPATIBILITY ANTIGEN\,A-11\,ALPHA CHAIN, COMPND 6 MHC CLASS I ANTIGEN A*2; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 10 CHAIN: B, D; COMPND 11 SYNONYM: BETA-2-MICROGLOBULIN FORM PI 5.3; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: AZOBENZENE-CONTAINING PEPTIDE; COMPND 15 CHAIN: E, F; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET-28A; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_VECTOR: PET-28A; SOURCE 19 MOL_ID: 3; SOURCE 20 SYNTHETIC: YES; SOURCE 21 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 22 ORGANISM_TAXID: 32630 KEYWDS IMMUNE SYSTEM, AZOBENZENE, HLA-A, SYNTHETIC PEPTIDE EXPDTA X-RAY DIFFRACTION AUTHOR S.Y.THONG,J.W.YAP,P.Y.LIM,S.H.VERHELST,J.LESCAR,R.MEIJERS, AUTHOR 2 G.M.GROTENBREG REVDAT 6 10-JAN-24 4UQ3 1 REMARK REVDAT 5 15-NOV-23 4UQ3 1 REMARK LINK ATOM REVDAT 4 16-JAN-19 4UQ3 1 JRNL REVDAT 3 25-MAR-15 4UQ3 1 JRNL REVDAT 2 18-MAR-15 4UQ3 1 ATOM REVDAT 1 17-SEP-14 4UQ3 0 JRNL AUTH J.A.CHOO,S.Y.THONG,J.YAP,W.J.VAN ESCH,M.RAIDA,R.MEIJERS, JRNL AUTH 2 J.LESCAR,S.H.VERHELST,G.M.GROTENBREG JRNL TITL BIOORTHOGONAL CLEAVAGE AND EXCHANGE OF MAJOR JRNL TITL 2 HISTOCOMPATIBILITY COMPLEX LIGANDS BY EMPLOYING JRNL TITL 3 AZOBENZENE-CONTAINING PEPTIDES. JRNL REF ANGEW. CHEM. INT. ED. ENGL. V. 53 13390 2014 JRNL REFN ESSN 1521-3773 JRNL PMID 25348595 JRNL DOI 10.1002/ANIE.201406295 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.0 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.89 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 40893 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) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2181 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 : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.15 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.98 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2985 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.1743 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2861 REMARK 3 BIN R VALUE (WORKING SET) : 0.1712 REMARK 3 BIN FREE R VALUE : 0.2471 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.15 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 124 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 : 6280 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 537 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.93 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.93 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.18170 REMARK 3 B22 (A**2) : 0.31180 REMARK 3 B33 (A**2) : -0.49360 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.72770 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.215 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.260 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.185 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.250 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.185 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 : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.908 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 6549 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 8897 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 2269 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 171 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 968 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 6549 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 799 ; 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 : 8006 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.04 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.59 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 17.25 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 4UQ3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-JUN-14. REMARK 100 THE DEPOSITION ID IS D_1290061001. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-FEB-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40893 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 28.890 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.3 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 81.3 REMARK 200 DATA REDUNDANCY IN SHELL : 1.70 REMARK 200 R MERGE FOR SHELL (I) : 0.09000 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3FQT REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 39.79000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 5250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22550 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.8 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, E REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 5090 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.3 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 CB SER F 3 N XY1 F 4 1.34 REMARK 500 OH TYR C 113 O HOH A 2094 2.03 REMARK 500 REMARK 500 REMARK: NULL 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 SER F 3 CB SER F 3 OG -0.190 REMARK 500 SER F 3 C SER F 3 O 0.195 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 SER F 3 CA - C - O ANGL. DEV. = -13.3 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 PRO A 15 122.07 -36.82 REMARK 500 ASP A 29 -122.42 53.68 REMARK 500 HIS A 114 93.42 -164.20 REMARK 500 TRP B 61 -3.60 81.47 REMARK 500 ASP C 29 -121.31 54.28 REMARK 500 HIS C 114 93.59 -163.70 REMARK 500 TRP D 61 -3.14 82.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1277 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1278 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 1279 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA C 1277 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA C 1278 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA D 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA D 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN E OF AZOBENZENE REMARK 800 -CONTAINING PEPTIDE REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN F OF AZOBENZENE REMARK 800 -CONTAINING PEPTIDE REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4UQ2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HLA-A1101 IN COMPLEX WITH AN AZOBENZENE- REMARK 900 CONTAINING PEPTIDE DBREF 4UQ3 A 1 275 UNP P01892 1A02_HUMAN 25 299 DBREF 4UQ3 B 2 100 UNP P61769 B2MG_HUMAN 21 119 DBREF 4UQ3 C 1 275 UNP P01892 1A02_HUMAN 25 299 DBREF 4UQ3 D 2 100 UNP P61769 B2MG_HUMAN 21 119 DBREF 4UQ3 E 1 6 PDB 4UQ3 4UQ3 1 6 DBREF 4UQ3 F 1 6 PDB 4UQ3 4UQ3 1 6 SEQADV 4UQ3 MET B 1 UNP P61769 EXPRESSION TAG SEQADV 4UQ3 MET D 1 UNP P61769 EXPRESSION TAG SEQRES 1 A 275 GLY SER HIS SER MET ARG TYR PHE PHE THR SER VAL SER SEQRES 2 A 275 ARG PRO GLY ARG GLY GLU PRO ARG PHE ILE ALA VAL GLY SEQRES 3 A 275 TYR VAL ASP ASP THR GLN PHE VAL ARG PHE ASP SER ASP SEQRES 4 A 275 ALA ALA SER GLN ARG MET GLU PRO ARG ALA PRO TRP ILE SEQRES 5 A 275 GLU GLN GLU GLY PRO GLU TYR TRP ASP GLY GLU THR ARG SEQRES 6 A 275 LYS VAL LYS ALA HIS SER GLN THR HIS ARG VAL ASP LEU SEQRES 7 A 275 GLY THR LEU ARG GLY TYR TYR ASN GLN SER GLU ALA GLY SEQRES 8 A 275 SER HIS THR VAL GLN ARG MET TYR GLY CYS ASP VAL GLY SEQRES 9 A 275 SER ASP TRP ARG PHE LEU ARG GLY TYR HIS GLN TYR ALA SEQRES 10 A 275 TYR ASP GLY LYS ASP TYR ILE ALA LEU LYS GLU ASP LEU SEQRES 11 A 275 ARG SER TRP THR ALA ALA ASP MET ALA ALA GLN THR THR SEQRES 12 A 275 LYS HIS LYS TRP GLU ALA ALA HIS VAL ALA GLU GLN LEU SEQRES 13 A 275 ARG ALA TYR LEU GLU GLY THR CYS VAL GLU TRP LEU ARG SEQRES 14 A 275 ARG TYR LEU GLU ASN GLY LYS GLU THR LEU GLN ARG THR SEQRES 15 A 275 ASP ALA PRO LYS THR HIS MET THR HIS HIS ALA VAL SER SEQRES 16 A 275 ASP HIS GLU ALA THR LEU ARG CYS TRP ALA LEU SER PHE SEQRES 17 A 275 TYR PRO ALA GLU ILE THR LEU THR TRP GLN ARG ASP GLY SEQRES 18 A 275 GLU ASP GLN THR GLN ASP THR GLU LEU VAL GLU THR ARG SEQRES 19 A 275 PRO ALA GLY ASP GLY THR PHE GLN LYS TRP ALA ALA VAL SEQRES 20 A 275 VAL VAL PRO SER GLY GLN GLU GLN ARG TYR THR CYS HIS SEQRES 21 A 275 VAL GLN HIS GLU GLY LEU PRO LYS PRO LEU THR LEU ARG SEQRES 22 A 275 TRP GLU SEQRES 1 B 100 MET ILE GLN ARG THR PRO LYS ILE GLN VAL TYR SER ARG SEQRES 2 B 100 HIS PRO ALA GLU ASN GLY LYS SER ASN PHE LEU ASN CYS SEQRES 3 B 100 TYR VAL SER GLY PHE HIS PRO SER ASP ILE GLU VAL ASP SEQRES 4 B 100 LEU LEU LYS ASN GLY GLU ARG ILE GLU LYS VAL GLU HIS SEQRES 5 B 100 SER ASP LEU SER PHE SER LYS ASP TRP SER PHE TYR LEU SEQRES 6 B 100 LEU TYR TYR THR GLU PHE THR PRO THR GLU LYS ASP GLU SEQRES 7 B 100 TYR ALA CYS ARG VAL ASN HIS VAL THR LEU SER GLN PRO SEQRES 8 B 100 LYS ILE VAL LYS TRP ASP ARG ASP MET SEQRES 1 C 275 GLY SER HIS SER MET ARG TYR PHE PHE THR SER VAL SER SEQRES 2 C 275 ARG PRO GLY ARG GLY GLU PRO ARG PHE ILE ALA VAL GLY SEQRES 3 C 275 TYR VAL ASP ASP THR GLN PHE VAL ARG PHE ASP SER ASP SEQRES 4 C 275 ALA ALA SER GLN ARG MET GLU PRO ARG ALA PRO TRP ILE SEQRES 5 C 275 GLU GLN GLU GLY PRO GLU TYR TRP ASP GLY GLU THR ARG SEQRES 6 C 275 LYS VAL LYS ALA HIS SER GLN THR HIS ARG VAL ASP LEU SEQRES 7 C 275 GLY THR LEU ARG GLY TYR TYR ASN GLN SER GLU ALA GLY SEQRES 8 C 275 SER HIS THR VAL GLN ARG MET TYR GLY CYS ASP VAL GLY SEQRES 9 C 275 SER ASP TRP ARG PHE LEU ARG GLY TYR HIS GLN TYR ALA SEQRES 10 C 275 TYR ASP GLY LYS ASP TYR ILE ALA LEU LYS GLU ASP LEU SEQRES 11 C 275 ARG SER TRP THR ALA ALA ASP MET ALA ALA GLN THR THR SEQRES 12 C 275 LYS HIS LYS TRP GLU ALA ALA HIS VAL ALA GLU GLN LEU SEQRES 13 C 275 ARG ALA TYR LEU GLU GLY THR CYS VAL GLU TRP LEU ARG SEQRES 14 C 275 ARG TYR LEU GLU ASN GLY LYS GLU THR LEU GLN ARG THR SEQRES 15 C 275 ASP ALA PRO LYS THR HIS MET THR HIS HIS ALA VAL SER SEQRES 16 C 275 ASP HIS GLU ALA THR LEU ARG CYS TRP ALA LEU SER PHE SEQRES 17 C 275 TYR PRO ALA GLU ILE THR LEU THR TRP GLN ARG ASP GLY SEQRES 18 C 275 GLU ASP GLN THR GLN ASP THR GLU LEU VAL GLU THR ARG SEQRES 19 C 275 PRO ALA GLY ASP GLY THR PHE GLN LYS TRP ALA ALA VAL SEQRES 20 C 275 VAL VAL PRO SER GLY GLN GLU GLN ARG TYR THR CYS HIS SEQRES 21 C 275 VAL GLN HIS GLU GLY LEU PRO LYS PRO LEU THR LEU ARG SEQRES 22 C 275 TRP GLU SEQRES 1 D 100 MET ILE GLN ARG THR PRO LYS ILE GLN VAL TYR SER ARG SEQRES 2 D 100 HIS PRO ALA GLU ASN GLY LYS SER ASN PHE LEU ASN CYS SEQRES 3 D 100 TYR VAL SER GLY PHE HIS PRO SER ASP ILE GLU VAL ASP SEQRES 4 D 100 LEU LEU LYS ASN GLY GLU ARG ILE GLU LYS VAL GLU HIS SEQRES 5 D 100 SER ASP LEU SER PHE SER LYS ASP TRP SER PHE TYR LEU SEQRES 6 D 100 LEU TYR TYR THR GLU PHE THR PRO THR GLU LYS ASP GLU SEQRES 7 D 100 TYR ALA CYS ARG VAL ASN HIS VAL THR LEU SER GLN PRO SEQRES 8 D 100 LYS ILE VAL LYS TRP ASP ARG ASP MET SEQRES 1 E 6 GLY LEU SER XY1 XFW LEU SEQRES 1 F 6 GLY LEU SER XY1 XFW LEU HET XY1 E 4 20 HET XFW E 5 9 HET XY1 F 4 20 HET XFW F 5 9 HET IPA A1277 4 HET IPA A1278 4 HET IPA A1279 4 HET IPA B1101 4 HET IPA C1277 4 HET IPA C1278 4 HET IPA D1101 4 HET IPA D1102 4 HETNAM XY1 4-[(E)-[5-(2-AZANYLETHYL)-2-OXIDANYL- HETNAM 2 XY1 PHENYL]DIAZENYL]BENZOIC ACID HETNAM XFW (2S)-2,5,5-TRIS(AZANYL)PENTANOIC ACID HETNAM IPA ISOPROPYL ALCOHOL HETSYN XY1 4-[5-(2-AMINOETHYL)-2-HYDROXYPHENYLAZO]-BENZOIC ACID HETSYN IPA 2-PROPANOL FORMUL 5 XY1 2(C15 H15 N3 O3) FORMUL 5 XFW 2(C5 H13 N3 O2) FORMUL 7 IPA 8(C3 H8 O) FORMUL 15 HOH *537(H2 O) HELIX 1 1 ALA A 49 GLU A 53 5 5 HELIX 2 2 GLY A 56 TYR A 85 1 30 HELIX 3 3 ASP A 137 HIS A 151 1 15 HELIX 4 4 HIS A 151 GLY A 162 1 12 HELIX 5 5 GLY A 162 GLY A 175 1 14 HELIX 6 6 GLY A 175 GLN A 180 1 6 HELIX 7 7 THR A 225 THR A 228 5 4 HELIX 8 8 GLN A 253 GLN A 255 5 3 HELIX 9 9 ALA C 49 GLU C 53 5 5 HELIX 10 10 GLY C 56 TYR C 85 1 30 HELIX 11 11 ASP C 137 ALA C 150 1 14 HELIX 12 12 HIS C 151 GLY C 162 1 12 HELIX 13 13 GLY C 162 GLY C 175 1 14 HELIX 14 14 GLY C 175 GLN C 180 1 6 HELIX 15 15 THR C 225 THR C 228 5 4 HELIX 16 16 GLN C 253 GLN C 255 5 3 SHEET 1 AA 8 GLU A 46 PRO A 47 0 SHEET 2 AA 8 THR A 31 ASP A 37 -1 O ARG A 35 N GLU A 46 SHEET 3 AA 8 ARG A 21 VAL A 28 -1 O ALA A 24 N PHE A 36 SHEET 4 AA 8 HIS A 3 VAL A 12 -1 O ARG A 6 N TYR A 27 SHEET 5 AA 8 THR A 94 VAL A 103 -1 O VAL A 95 N SER A 11 SHEET 6 AA 8 PHE A 109 TYR A 118 -1 N LEU A 110 O ASP A 102 SHEET 7 AA 8 LYS A 121 LEU A 126 -1 O LYS A 121 N TYR A 118 SHEET 8 AA 8 TRP A 133 ALA A 135 -1 O THR A 134 N ALA A 125 SHEET 1 AB 4 LYS A 186 ALA A 193 0 SHEET 2 AB 4 GLU A 198 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 AB 4 PHE A 241 PRO A 250 -1 O PHE A 241 N PHE A 208 SHEET 4 AB 4 ARG A 234 PRO A 235 1 O ARG A 234 N GLN A 242 SHEET 1 AC 4 LYS A 186 ALA A 193 0 SHEET 2 AC 4 GLU A 198 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 AC 4 PHE A 241 PRO A 250 -1 O PHE A 241 N PHE A 208 SHEET 4 AC 4 GLU A 229 LEU A 230 -1 O GLU A 229 N ALA A 246 SHEET 1 AD 2 ARG A 234 PRO A 235 0 SHEET 2 AD 2 PHE A 241 PRO A 250 1 O GLN A 242 N ARG A 234 SHEET 1 AE 4 GLU A 222 ASP A 223 0 SHEET 2 AE 4 THR A 214 ARG A 219 -1 O ARG A 219 N GLU A 222 SHEET 3 AE 4 TYR A 257 GLN A 262 -1 O THR A 258 N GLN A 218 SHEET 4 AE 4 LEU A 270 ARG A 273 -1 O LEU A 270 N VAL A 261 SHEET 1 BA 4 LYS B 7 SER B 12 0 SHEET 2 BA 4 ASN B 22 PHE B 31 -1 O ASN B 25 N TYR B 11 SHEET 3 BA 4 PHE B 63 PHE B 71 -1 O PHE B 63 N PHE B 31 SHEET 4 BA 4 SER B 56 PHE B 57 1 O SER B 56 N TYR B 64 SHEET 1 BB 4 LYS B 7 SER B 12 0 SHEET 2 BB 4 ASN B 22 PHE B 31 -1 O ASN B 25 N TYR B 11 SHEET 3 BB 4 PHE B 63 PHE B 71 -1 O PHE B 63 N PHE B 31 SHEET 4 BB 4 GLU B 51 HIS B 52 -1 O GLU B 51 N TYR B 68 SHEET 1 BC 2 SER B 56 PHE B 57 0 SHEET 2 BC 2 PHE B 63 PHE B 71 1 O TYR B 64 N SER B 56 SHEET 1 BD 4 GLU B 45 ARG B 46 0 SHEET 2 BD 4 GLU B 37 LYS B 42 -1 O LYS B 42 N GLU B 45 SHEET 3 BD 4 TYR B 79 ASN B 84 -1 O ALA B 80 N LEU B 41 SHEET 4 BD 4 LYS B 92 LYS B 95 -1 O LYS B 92 N VAL B 83 SHEET 1 CA 8 GLU C 46 PRO C 47 0 SHEET 2 CA 8 THR C 31 ASP C 37 -1 O ARG C 35 N GLU C 46 SHEET 3 CA 8 ARG C 21 VAL C 28 -1 O ALA C 24 N PHE C 36 SHEET 4 CA 8 HIS C 3 VAL C 12 -1 O ARG C 6 N TYR C 27 SHEET 5 CA 8 THR C 94 VAL C 103 -1 O VAL C 95 N SER C 11 SHEET 6 CA 8 PHE C 109 TYR C 118 -1 N LEU C 110 O ASP C 102 SHEET 7 CA 8 LYS C 121 LEU C 126 -1 O LYS C 121 N TYR C 118 SHEET 8 CA 8 TRP C 133 ALA C 135 -1 O THR C 134 N ALA C 125 SHEET 1 CB 4 LYS C 186 ALA C 193 0 SHEET 2 CB 4 GLU C 198 PHE C 208 -1 O THR C 200 N HIS C 192 SHEET 3 CB 4 PHE C 241 PRO C 250 -1 O PHE C 241 N PHE C 208 SHEET 4 CB 4 ARG C 234 PRO C 235 1 O ARG C 234 N GLN C 242 SHEET 1 CC 4 LYS C 186 ALA C 193 0 SHEET 2 CC 4 GLU C 198 PHE C 208 -1 O THR C 200 N HIS C 192 SHEET 3 CC 4 PHE C 241 PRO C 250 -1 O PHE C 241 N PHE C 208 SHEET 4 CC 4 GLU C 229 LEU C 230 -1 O GLU C 229 N ALA C 246 SHEET 1 CD 2 ARG C 234 PRO C 235 0 SHEET 2 CD 2 PHE C 241 PRO C 250 1 O GLN C 242 N ARG C 234 SHEET 1 CE 4 GLU C 222 ASP C 223 0 SHEET 2 CE 4 THR C 214 ARG C 219 -1 O ARG C 219 N GLU C 222 SHEET 3 CE 4 TYR C 257 GLN C 262 -1 O THR C 258 N GLN C 218 SHEET 4 CE 4 LEU C 270 ARG C 273 -1 O LEU C 270 N VAL C 261 SHEET 1 DA 4 LYS D 7 SER D 12 0 SHEET 2 DA 4 ASN D 22 PHE D 31 -1 O ASN D 25 N TYR D 11 SHEET 3 DA 4 PHE D 63 PHE D 71 -1 O PHE D 63 N PHE D 31 SHEET 4 DA 4 SER D 56 PHE D 57 1 O SER D 56 N TYR D 64 SHEET 1 DB 4 LYS D 7 SER D 12 0 SHEET 2 DB 4 ASN D 22 PHE D 31 -1 O ASN D 25 N TYR D 11 SHEET 3 DB 4 PHE D 63 PHE D 71 -1 O PHE D 63 N PHE D 31 SHEET 4 DB 4 GLU D 51 HIS D 52 -1 O GLU D 51 N TYR D 68 SHEET 1 DC 2 SER D 56 PHE D 57 0 SHEET 2 DC 2 PHE D 63 PHE D 71 1 O TYR D 64 N SER D 56 SHEET 1 DD 4 GLU D 45 ARG D 46 0 SHEET 2 DD 4 GLU D 37 LYS D 42 -1 O LYS D 42 N GLU D 45 SHEET 3 DD 4 TYR D 79 ASN D 84 -1 O ALA D 80 N LEU D 41 SHEET 4 DD 4 LYS D 92 LYS D 95 -1 O LYS D 92 N VAL D 83 SSBOND 1 CYS A 101 CYS A 164 1555 1555 2.04 SSBOND 2 CYS A 203 CYS A 259 1555 1555 2.00 SSBOND 3 CYS B 26 CYS B 81 1555 1555 2.04 SSBOND 4 CYS C 101 CYS C 164 1555 1555 2.06 SSBOND 5 CYS C 203 CYS C 259 1555 1555 2.01 SSBOND 6 CYS D 26 CYS D 81 1555 1555 2.02 LINK C XY1 E 4 N XFW E 5 1555 1555 1.35 LINK C XY1 F 4 N XFW F 5 1555 1555 1.36 CISPEP 1 TYR A 209 PRO A 210 0 -2.20 CISPEP 2 HIS B 32 PRO B 33 0 -1.59 CISPEP 3 TYR C 209 PRO C 210 0 -0.89 CISPEP 4 HIS D 32 PRO D 33 0 -0.45 SITE 1 AC1 3 SER A 105 HOH A2001 THR C 134 SITE 1 AC2 6 SER A 92 HIS A 93 ASP A 119 HOH A2088 SITE 2 AC2 6 HOH A2091 MET B 1 SITE 1 AC3 5 ARG A 14 ARG A 21 HOH B2024 GLN D 90 SITE 2 AC3 5 PRO D 91 SITE 1 AC4 3 ARG A 21 HIS B 52 TYR B 67 SITE 1 AC5 5 PHE C 8 TYR C 27 ASP C 29 ASP C 30 SITE 2 AC5 5 IPA C1278 SITE 1 AC6 3 ARG C 6 IPA C1277 LYS D 59 SITE 1 AC7 2 GLU D 48 LYS D 49 SITE 1 AC8 3 PHE D 71 THR D 72 HOH D2046 SITE 1 AC9 24 TYR A 7 PHE A 9 GLU A 63 LYS A 66 SITE 2 AC9 24 VAL A 67 HIS A 70 THR A 73 VAL A 76 SITE 3 AC9 24 ASP A 77 THR A 80 TYR A 84 TYR A 99 SITE 4 AC9 24 TYR A 116 THR A 143 TRP A 147 GLN A 155 SITE 5 AC9 24 LEU A 156 TYR A 159 TRP A 167 TYR A 171 SITE 6 AC9 24 HOH A2069 HOH A2075 HOH A2081 HOH A2210 SITE 1 BC1 27 TYR C 7 MET C 45 GLU C 63 LYS C 66 SITE 2 BC1 27 VAL C 67 HIS C 70 THR C 73 VAL C 76 SITE 3 BC1 27 ASP C 77 THR C 80 LEU C 81 TYR C 84 SITE 4 BC1 27 TYR C 99 TYR C 116 THR C 143 TRP C 147 SITE 5 BC1 27 GLN C 155 LEU C 156 TYR C 159 TRP C 167 SITE 6 BC1 27 TYR C 171 HOH C2068 HOH C2078 HOH C2079 SITE 7 BC1 27 HOH C2097 HOH C2194 GLU D 17 CRYST1 57.790 79.580 83.970 90.00 89.96 90.00 P 1 21 1 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 0.017304 0.000000 -0.000012 0.00000 SCALE2 0.000000 0.012566 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011909 0.00000 MTRIX1 1 -0.999970 0.005550 -0.006010 29.05619 1 MTRIX2 1 -0.005740 -0.999430 0.033200 36.23131 1 MTRIX3 1 -0.005820 0.033240 0.999430 15.92230 1 MTRIX1 2 -0.999550 0.026670 -0.014020 29.19728 1 MTRIX2 2 -0.027290 -0.998540 0.046570 36.85281 1 MTRIX3 2 -0.012760 0.046930 0.998820 16.40433 1