PDB Short entry for 5NIG HEADER IMMUNE SYSTEM 24-MAR-17 5NIG TITLE CRYSTAL STRUCTURE OF HLA-DRB1*04:01 WITH MODIFIED ALPHA-ENOLASE TITLE 2 PEPTIDE 326-340 (ARGININE 327 TO CITRULLINE) COMPND MOL_ID: 1; COMPND 2 MOLECULE: HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DR ALPHA CHAIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MHC CLASS II ANTIGEN DRA; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DRB1-4 BETA CHAIN; COMPND 8 CHAIN: B; COMPND 9 SYNONYM: MHC CLASS II ANTIGEN DRB1*4,DR4; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: ALPHA-ENOLASE; COMPND 13 CHAIN: C; COMPND 14 FRAGMENT: UNP RESIDUES 326-340; COMPND 15 SYNONYM: 2-PHOSPHO-D-GLYCERATE HYDRO-LYASE,C-MYC PROMOTER-BINDING COMPND 16 PROTEIN,ENOLASE 1,MBP-1,MPB-1,NON-NEURAL ENOLASE,NNE,PHOSPHOPYRUVATE COMPND 17 HYDRATASE,PLASMINOGEN-BINDING PROTEIN; COMPND 18 EC: 4.2.1.11; COMPND 19 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: HLA-DRA, HLA-DRA1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: HLA-DRB1; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 18 ORGANISM_COMMON: HUMAN; SOURCE 19 ORGANISM_TAXID: 9606 KEYWDS HLA-DR, ENOLASE, ARTHRITIS, CITRULLINE, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR C.GERSTNER,A.DUBNOVITSKY REVDAT 5 17-JAN-24 5NIG 1 REMARK REVDAT 4 15-NOV-23 5NIG 1 LINK ATOM REVDAT 3 16-OCT-19 5NIG 1 REMARK REVDAT 2 01-AUG-18 5NIG 1 JRNL REVDAT 1 13-JUN-18 5NIG 0 JRNL AUTH J.PIEPER,A.DUBNOVITSKY,C.GERSTNER,E.A.JAMES,M.RIECK, JRNL AUTH 2 G.KOZHUKH,K.TANDRE,S.PELLEGRINO,J.A.GEBE,L.RONNBLOM, JRNL AUTH 3 T.SANDALOVA,W.W.KWOK,L.KLARESKOG,J.H.BUCKNER,A.ACHOUR, JRNL AUTH 4 V.MALMSTROM JRNL TITL MEMORY T CELLS SPECIFIC TO CITRULLINATED ALPHA-ENOLASE ARE JRNL TITL 2 ENRICHED IN THE RHEUMATIC JOINT. JRNL REF J. AUTOIMMUN. V. 92 47 2018 JRNL REFN ISSN 1095-9157 JRNL PMID 29853344 JRNL DOI 10.1016/J.JAUT.2018.04.004 REMARK 2 REMARK 2 RESOLUTION. 1.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.86 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 101530 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) : 0.143 REMARK 3 R VALUE (WORKING SET) : 0.142 REMARK 3 FREE R VALUE : 0.181 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2100 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) : 1.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.38 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7183 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.87 REMARK 3 BIN R VALUE (WORKING SET) : 0.2670 REMARK 3 BIN FREE R VALUE SET COUNT : 149 REMARK 3 BIN FREE R VALUE : 0.2860 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3217 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 414 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.68 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.73000 REMARK 3 B22 (A**2) : -1.18000 REMARK 3 B33 (A**2) : 0.45000 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): 0.046 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.047 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.036 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.062 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.978 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.959 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3448 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3212 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4710 ; 1.550 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7401 ; 0.924 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 420 ; 6.796 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 182 ;35.070 ;23.846 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 564 ;11.401 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;16.776 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 508 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3899 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 849 ; 0.002 ; 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): 1600 ; 1.716 ; 1.923 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1598 ; 1.715 ; 1.919 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2002 ; 2.161 ; 2.886 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2003 ; 2.160 ; 2.888 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1848 ; 2.194 ; 2.262 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1848 ; 2.192 ; 2.262 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2692 ; 2.687 ; 3.273 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3812 ; 3.543 ;24.090 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3813 ; 3.542 ;24.090 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 6660 ; 2.178 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 256 ;25.552 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 6714 ; 9.525 ; 5.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 REMARK 4 REMARK 4 5NIG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-MAR-17. REMARK 100 THE DEPOSITION ID IS D_1200004181. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-MAY-16 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 : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.966 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 103630 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.350 REMARK 200 RESOLUTION RANGE LOW (A) : 46.860 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: 5NI9 REMARK 200 REMARK 200 REMARK: ROD-LIKE BIG CRYSTALS REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES PH 6.5 10% (VOL/VOL) MPD 15% REMARK 280 (VOL/VOL) PEG 3350, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 34.30300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 64.15950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.30300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 64.15950 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18630 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -46.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 ILE A 1 REMARK 465 SER A 182 REMARK 465 SER A 183 REMARK 465 ALA A 184 REMARK 465 ASP A 185 REMARK 465 LEU A 186 REMARK 465 VAL A 187 REMARK 465 PRO A 188 REMARK 465 ARG A 189 REMARK 465 ARG B 198 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 O HOH A 322 O HOH A 403 2.12 REMARK 500 O HOH A 355 O HOH A 437 2.13 REMARK 500 OE1 GLN B 149 O HOH B 303 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 VAL A 136 -179.32 -68.24 REMARK 500 HIS B 33 -114.72 64.67 REMARK 500 THR B 90 -79.94 -122.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 502 DISTANCE = 6.11 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue URE B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD C 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD C 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5NI9 RELATED DB: PDB REMARK 900 ENTRY 5NI9 CONTAINS STRUCTURE OF DRB1*04:01 IN COMPLEX WITH NATIVE REMARK 900 VERSION OF THE ALPHA-ENOLASE PEPTIDE 326-340 DBREF 5NIG A 1 181 UNP P01903 DRA_HUMAN 26 206 DBREF 5NIG B 1 190 UNP P13760 2B14_HUMAN 30 219 DBREF 5NIG C 326 340 UNP P06733 ENOA_HUMAN 326 340 SEQADV 5NIG SER A 182 UNP P01903 EXPRESSION TAG SEQADV 5NIG SER A 183 UNP P01903 EXPRESSION TAG SEQADV 5NIG ALA A 184 UNP P01903 EXPRESSION TAG SEQADV 5NIG ASP A 185 UNP P01903 EXPRESSION TAG SEQADV 5NIG LEU A 186 UNP P01903 EXPRESSION TAG SEQADV 5NIG VAL A 187 UNP P01903 EXPRESSION TAG SEQADV 5NIG PRO A 188 UNP P01903 EXPRESSION TAG SEQADV 5NIG ARG A 189 UNP P01903 EXPRESSION TAG SEQADV 5NIG SER B 191 UNP P13760 EXPRESSION TAG SEQADV 5NIG SER B 192 UNP P13760 EXPRESSION TAG SEQADV 5NIG ALA B 193 UNP P13760 EXPRESSION TAG SEQADV 5NIG ASP B 194 UNP P13760 EXPRESSION TAG SEQADV 5NIG LEU B 195 UNP P13760 EXPRESSION TAG SEQADV 5NIG VAL B 196 UNP P13760 EXPRESSION TAG SEQADV 5NIG PRO B 197 UNP P13760 EXPRESSION TAG SEQADV 5NIG ARG B 198 UNP P13760 EXPRESSION TAG SEQRES 1 A 189 ILE LYS GLU GLU HIS VAL ILE ILE GLN ALA GLU PHE TYR SEQRES 2 A 189 LEU ASN PRO ASP GLN SER GLY GLU PHE MET PHE ASP PHE SEQRES 3 A 189 ASP GLY ASP GLU ILE PHE HIS VAL ASP MET ALA LYS LYS SEQRES 4 A 189 GLU THR VAL TRP ARG LEU GLU GLU PHE GLY ARG PHE ALA SEQRES 5 A 189 SER PHE GLU ALA GLN GLY ALA LEU ALA ASN ILE ALA VAL SEQRES 6 A 189 ASP LYS ALA ASN LEU GLU ILE MET THR LYS ARG SER ASN SEQRES 7 A 189 TYR THR PRO ILE THR ASN VAL PRO PRO GLU VAL THR VAL SEQRES 8 A 189 LEU THR ASN SER PRO VAL GLU LEU ARG GLU PRO ASN VAL SEQRES 9 A 189 LEU ILE CYS PHE ILE ASP LYS PHE THR PRO PRO VAL VAL SEQRES 10 A 189 ASN VAL THR TRP LEU ARG ASN GLY LYS PRO VAL THR THR SEQRES 11 A 189 GLY VAL SER GLU THR VAL PHE LEU PRO ARG GLU ASP HIS SEQRES 12 A 189 LEU PHE ARG LYS PHE HIS TYR LEU PRO PHE LEU PRO SER SEQRES 13 A 189 THR GLU ASP VAL TYR ASP CYS ARG VAL GLU HIS TRP GLY SEQRES 14 A 189 LEU ASP GLU PRO LEU LEU LYS HIS TRP GLU PHE ASP SER SEQRES 15 A 189 SER ALA ASP LEU VAL PRO ARG SEQRES 1 B 198 GLY ASP THR ARG PRO ARG PHE LEU GLU GLN VAL LYS HIS SEQRES 2 B 198 GLU CYS HIS PHE PHE ASN GLY THR GLU ARG VAL ARG PHE SEQRES 3 B 198 LEU ASP ARG TYR PHE TYR HIS GLN GLU GLU TYR VAL ARG SEQRES 4 B 198 PHE ASP SER ASP VAL GLY GLU TYR ARG ALA VAL THR GLU SEQRES 5 B 198 LEU GLY ARG PRO ASP ALA GLU TYR TRP ASN SER GLN LYS SEQRES 6 B 198 ASP LEU LEU GLU GLN LYS ARG ALA ALA VAL ASP THR TYR SEQRES 7 B 198 CYS ARG HIS ASN TYR GLY VAL GLY GLU SER PHE THR VAL SEQRES 8 B 198 GLN ARG ARG VAL TYR PRO GLU VAL THR VAL TYR PRO ALA SEQRES 9 B 198 LYS THR GLN PRO LEU GLN HIS HIS ASN LEU LEU VAL CYS SEQRES 10 B 198 SER VAL ASN GLY PHE TYR PRO GLY SER ILE GLU VAL ARG SEQRES 11 B 198 TRP PHE ARG ASN GLY GLN GLU GLU LYS THR GLY VAL VAL SEQRES 12 B 198 SER THR GLY LEU ILE GLN ASN GLY ASP TRP THR PHE GLN SEQRES 13 B 198 THR LEU VAL MET LEU GLU THR VAL PRO ARG SER GLY GLU SEQRES 14 B 198 VAL TYR THR CYS GLN VAL GLU HIS PRO SER LEU THR SER SEQRES 15 B 198 PRO LEU THR VAL GLU TRP ARG ALA SER SER ALA ASP LEU SEQRES 16 B 198 VAL PRO ARG SEQRES 1 C 15 LYS CIR ILE ALA LYS ALA VAL ASN GLU LYS SER CYS ASN SEQRES 2 C 15 CYS LEU MODRES 5NIG CIR C 327 ARG MODIFIED RESIDUE HET CIR C 327 11 HET MPD A 201 8 HET URE B 201 4 HET PGE B 202 10 HET MPD C 401 8 HET MPD C 402 8 HETNAM CIR CITRULLINE HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM URE UREA HETNAM PGE TRIETHYLENE GLYCOL FORMUL 3 CIR C6 H13 N3 O3 FORMUL 4 MPD 3(C6 H14 O2) FORMUL 5 URE C H4 N2 O FORMUL 6 PGE C6 H14 O4 FORMUL 9 HOH *414(H2 O) HELIX 1 AA1 LEU A 45 PHE A 51 5 7 HELIX 2 AA2 ALA A 56 SER A 77 1 22 HELIX 3 AA3 THR B 51 LEU B 53 5 3 HELIX 4 AA4 GLY B 54 SER B 63 1 10 HELIX 5 AA5 GLN B 64 TYR B 78 1 15 HELIX 6 AA6 TYR B 78 GLU B 87 1 10 HELIX 7 AA7 SER B 88 THR B 90 5 3 HELIX 8 AA8 SER B 191 ASP B 194 5 4 SHEET 1 AA1 8 GLU A 40 TRP A 43 0 SHEET 2 AA1 8 ASP A 29 ASP A 35 -1 N HIS A 33 O VAL A 42 SHEET 3 AA1 8 SER A 19 PHE A 26 -1 N PHE A 26 O ASP A 29 SHEET 4 AA1 8 HIS A 5 ASN A 15 -1 N ILE A 8 O ASP A 25 SHEET 5 AA1 8 PHE B 7 PHE B 18 -1 O CYS B 15 N ILE A 7 SHEET 6 AA1 8 ARG B 23 TYR B 32 -1 O LEU B 27 N GLU B 14 SHEET 7 AA1 8 GLU B 35 ASP B 41 -1 O TYR B 37 N TYR B 30 SHEET 8 AA1 8 TYR B 47 ALA B 49 -1 O ARG B 48 N ARG B 39 SHEET 1 AA2 4 GLU A 88 THR A 93 0 SHEET 2 AA2 4 ASN A 103 PHE A 112 -1 O PHE A 108 N THR A 90 SHEET 3 AA2 4 PHE A 145 PHE A 153 -1 O HIS A 149 N CYS A 107 SHEET 4 AA2 4 SER A 133 GLU A 134 -1 N SER A 133 O TYR A 150 SHEET 1 AA3 4 GLU A 88 THR A 93 0 SHEET 2 AA3 4 ASN A 103 PHE A 112 -1 O PHE A 108 N THR A 90 SHEET 3 AA3 4 PHE A 145 PHE A 153 -1 O HIS A 149 N CYS A 107 SHEET 4 AA3 4 LEU A 138 PRO A 139 -1 N LEU A 138 O ARG A 146 SHEET 1 AA4 4 LYS A 126 PRO A 127 0 SHEET 2 AA4 4 ASN A 118 ARG A 123 -1 N ARG A 123 O LYS A 126 SHEET 3 AA4 4 TYR A 161 GLU A 166 -1 O ASP A 162 N LEU A 122 SHEET 4 AA4 4 LEU A 174 TRP A 178 -1 O LEU A 174 N VAL A 165 SHEET 1 AA5 4 GLU B 98 PRO B 103 0 SHEET 2 AA5 4 ASN B 113 PHE B 122 -1 O SER B 118 N THR B 100 SHEET 3 AA5 4 PHE B 155 THR B 163 -1 O THR B 157 N VAL B 119 SHEET 4 AA5 4 VAL B 142 SER B 144 -1 N VAL B 143 O MET B 160 SHEET 1 AA6 4 GLU B 98 PRO B 103 0 SHEET 2 AA6 4 ASN B 113 PHE B 122 -1 O SER B 118 N THR B 100 SHEET 3 AA6 4 PHE B 155 THR B 163 -1 O THR B 157 N VAL B 119 SHEET 4 AA6 4 ILE B 148 GLN B 149 -1 N ILE B 148 O GLN B 156 SHEET 1 AA7 4 GLN B 136 GLU B 138 0 SHEET 2 AA7 4 GLU B 128 ARG B 133 -1 N ARG B 133 O GLN B 136 SHEET 3 AA7 4 VAL B 170 GLU B 176 -1 O GLN B 174 N ARG B 130 SHEET 4 AA7 4 LEU B 184 ARG B 189 -1 O VAL B 186 N CYS B 173 SSBOND 1 CYS A 107 CYS A 163 1555 1555 2.03 SSBOND 2 CYS B 15 CYS B 79 1555 1555 2.20 SSBOND 3 CYS B 117 CYS B 173 1555 1555 2.02 SSBOND 4 CYS C 337 CYS C 339 1555 1555 2.07 LINK C LYS C 326 N CIR C 327 1555 1555 1.34 LINK C CIR C 327 N ILE C 328 1555 1555 1.34 CISPEP 1 ASN A 15 PRO A 16 0 2.68 CISPEP 2 THR A 113 PRO A 114 0 -1.28 CISPEP 3 TYR B 123 PRO B 124 0 3.61 SITE 1 AC1 6 HIS A 33 ARG A 44 GLU A 134 HOH A 319 SITE 2 AC1 6 HOH A 329 HOH A 446 SITE 1 AC2 3 VAL B 24 ARG B 80 HOH B 315 SITE 1 AC3 11 ARG A 50 PHE A 51 ASN A 94 ASN B 120 SITE 2 AC3 11 GLY B 121 ASN B 150 ASP B 152 THR B 154 SITE 3 AC3 11 GLN B 156 HOH B 304 HOH B 357 SITE 1 AC4 5 LYS B 71 LYS C 330 ALA C 331 VAL C 332 SITE 2 AC4 5 HOH C 506 SITE 1 AC5 6 VAL A 116 GLU A 166 HIS A 167 TRP A 168 SITE 2 AC5 6 ASN C 338 LEU C 340 CRYST1 68.606 128.319 53.521 90.00 90.00 90.00 P 21 21 2 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 0.014576 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007793 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018684 0.00000