PDB Short entry for 3QXD HEADER IMMUNE SYSTEM 01-MAR-11 3QXD TITLE F54C HLA-DR1 BOUND WITH CLIP PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DR ALPHA CHAIN; COMPND 3 CHAIN: A, D; COMPND 4 FRAGMENT: UNP RESIDUES 26-207; COMPND 5 SYNONYM: MHC CLASS II ANTIGEN DRA; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DRB1-1 BETA CHAIN; COMPND 10 CHAIN: B, E; COMPND 11 FRAGMENT: UNP RESIDUES 30-219; COMPND 12 SYNONYM: MHC CLASS II ANTIGEN DRB1*1, DR-1, DR1; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 3; COMPND 15 MOLECULE: HLA CLASS II HISTOCOMPATIBILITY ANTIGEN GAMMA CHAIN COMPND 16 PEPTIDE; COMPND 17 CHAIN: F, C; COMPND 18 FRAGMENT: CLIP REGION; COMPND 19 SYNONYM: HLA-DR ANTIGENS-ASSOCIATED INVARIANT CHAIN, IA ANTIGEN- COMPND 20 ASSOCIATED INVARIANT CHAIN, II, P33; COMPND 21 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-DR1, HLA-DRA, HLA-DRA1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 GENE: HLA-DR1, HLA-DRB1; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 17 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 19 MOL_ID: 3; SOURCE 20 SYNTHETIC: YES; SOURCE 21 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 22 ORGANISM_COMMON: HUMAN; SOURCE 23 ORGANISM_TAXID: 9606; SOURCE 24 OTHER_DETAILS: THIS CHEMICALLY SYNTHESIZED SEQUENCE OCCURS NATURALLY SOURCE 25 IN HUMAN KEYWDS MHC CLASS II, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR C.A.PAINTER,L.J.STERN REVDAT 4 13-SEP-23 3QXD 1 SEQADV REVDAT 3 14-DEC-11 3QXD 1 JRNL REVDAT 2 30-NOV-11 3QXD 1 JRNL REVDAT 1 16-NOV-11 3QXD 0 JRNL AUTH C.A.PAINTER,M.P.NEGRONI,K.A.KELLERSBERGER,Z.ZAVALA-RUIZ, JRNL AUTH 2 J.E.EVANS,L.J.STERN JRNL TITL CONFORMATIONAL LABILITY IN THE CLASS II MHC 310 HELIX AND JRNL TITL 2 ADJACENT EXTENDED STRAND DICTATE HLA-DM SUSCEPTIBILITY AND JRNL TITL 3 PEPTIDE EXCHANGE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 108 19329 2011 JRNL REFN ISSN 0027-8424 JRNL PMID 22084083 JRNL DOI 10.1073/PNAS.1108074108 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7_650 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.19 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 42025 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.650 REMARK 3 FREE R VALUE TEST SET COUNT : 1955 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 37.1895 - 4.9560 1.00 4320 211 0.1828 0.2137 REMARK 3 2 4.9560 - 3.9351 1.00 4158 201 0.1504 0.1650 REMARK 3 3 3.9351 - 3.4381 1.00 4101 199 0.1885 0.2319 REMARK 3 4 3.4381 - 3.1239 0.99 4076 199 0.2008 0.2259 REMARK 3 5 3.1239 - 2.9001 0.98 4007 195 0.2056 0.2549 REMARK 3 6 2.9001 - 2.7292 0.98 3986 196 0.2047 0.2635 REMARK 3 7 2.7292 - 2.5925 0.97 3912 189 0.2037 0.2173 REMARK 3 8 2.5925 - 2.4797 0.96 3904 189 0.2129 0.2194 REMARK 3 9 2.4797 - 2.3843 0.95 3843 187 0.2233 0.2936 REMARK 3 10 2.3843 - 2.3020 0.94 3763 189 0.2143 0.2538 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.83 REMARK 3 K_SOL : 0.33 REMARK 3 B_SOL : 20.00 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.320 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.550 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 15.60960 REMARK 3 B22 (A**2) : 10.10780 REMARK 3 B33 (A**2) : 16.87100 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.004 6456 REMARK 3 ANGLE : 0.818 8782 REMARK 3 CHIRALITY : 0.055 945 REMARK 3 PLANARITY : 0.003 1150 REMARK 3 DIHEDRAL : 13.581 2384 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN 'A' AND ((RESSEQ 4:78))) OR (CHAIN 'C' AND REMARK 3 ((RESSEQ 87:101))) OR (CHAIN 'B' AND ((RESSEQ 1:92))) REMARK 3 ORIGIN FOR THE GROUP (A): 29.2632 7.6863 -0.1775 REMARK 3 T TENSOR REMARK 3 T11: -0.0903 T22: -0.0225 REMARK 3 T33: 0.0653 T12: -0.0604 REMARK 3 T13: 0.0133 T23: 0.0184 REMARK 3 L TENSOR REMARK 3 L11: 0.0404 L22: 0.0385 REMARK 3 L33: 0.0089 L12: -0.0041 REMARK 3 L13: 0.0138 L23: 0.0039 REMARK 3 S TENSOR REMARK 3 S11: 0.0432 S12: -0.0525 S13: 0.0251 REMARK 3 S21: 0.0333 S22: -0.0067 S23: -0.0707 REMARK 3 S31: 0.0334 S32: 0.0286 S33: 0.0265 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'E' AND ((RESSEQ 1:92))) OR (CHAIN 'D' AND REMARK 3 ((RESSEQ 4:80))) OR (CHAIN 'F' AND ((RESSEQ 87:101))) REMARK 3 ORIGIN FOR THE GROUP (A): 20.5923 18.6403 -34.9104 REMARK 3 T TENSOR REMARK 3 T11: 0.0081 T22: 0.0666 REMARK 3 T33: -0.0084 T12: -0.1351 REMARK 3 T13: -0.2079 T23: 0.0010 REMARK 3 L TENSOR REMARK 3 L11: 0.0279 L22: 0.0183 REMARK 3 L33: 0.0225 L12: 0.0198 REMARK 3 L13: 0.0154 L23: 0.0149 REMARK 3 S TENSOR REMARK 3 S11: -0.0032 S12: 0.0502 S13: 0.0236 REMARK 3 S21: -0.0114 S22: 0.0327 S23: -0.0460 REMARK 3 S31: -0.0414 S32: 0.0445 S33: 0.0640 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'D' AND ((RESSEQ 83:182)) REMARK 3 ORIGIN FOR THE GROUP (A): 14.8871 -7.9356 -33.1389 REMARK 3 T TENSOR REMARK 3 T11: 0.2164 T22: 0.0462 REMARK 3 T33: 0.1045 T12: 0.0258 REMARK 3 T13: -0.1410 T23: -0.0812 REMARK 3 L TENSOR REMARK 3 L11: 0.0061 L22: 0.0079 REMARK 3 L33: 0.0076 L12: -0.0023 REMARK 3 L13: -0.0003 L23: 0.0052 REMARK 3 S TENSOR REMARK 3 S11: 0.0184 S12: 0.0182 S13: -0.0068 REMARK 3 S21: -0.0099 S22: -0.0043 S23: -0.0184 REMARK 3 S31: 0.0211 S32: 0.0056 S33: -0.0021 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'E' AND ((RESSEQ 93:190)) REMARK 3 ORIGIN FOR THE GROUP (A): -9.5849 -4.3316 -23.8591 REMARK 3 T TENSOR REMARK 3 T11: 0.0451 T22: 0.0914 REMARK 3 T33: 0.1165 T12: -0.0457 REMARK 3 T13: -0.0366 T23: 0.0532 REMARK 3 L TENSOR REMARK 3 L11: 0.0410 L22: 0.0993 REMARK 3 L33: 0.0122 L12: 0.0614 REMARK 3 L13: -0.0134 L23: -0.0234 REMARK 3 S TENSOR REMARK 3 S11: 0.0233 S12: -0.0586 S13: -0.0268 REMARK 3 S21: -0.0148 S22: 0.0283 S23: 0.0917 REMARK 3 S31: 0.0085 S32: -0.0541 S33: -0.0218 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND ((RESSEQ 94:190)) REMARK 3 ORIGIN FOR THE GROUP (A): 20.2924 -25.7242 -18.2168 REMARK 3 T TENSOR REMARK 3 T11: 0.1353 T22: 0.0242 REMARK 3 T33: 0.1366 T12: 0.0787 REMARK 3 T13: -0.0967 T23: -0.0079 REMARK 3 L TENSOR REMARK 3 L11: 0.0182 L22: 0.0141 REMARK 3 L33: 0.0211 L12: -0.0066 REMARK 3 L13: 0.0002 L23: -0.0108 REMARK 3 S TENSOR REMARK 3 S11: 0.0203 S12: 0.0192 S13: -0.0645 REMARK 3 S21: -0.0282 S22: -0.0319 S23: 0.0027 REMARK 3 S31: 0.0232 S32: 0.0123 S33: -0.0073 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND ((RESSEQ 83:182)) REMARK 3 ORIGIN FOR THE GROUP (A): 6.6747 -7.2689 -7.2156 REMARK 3 T TENSOR REMARK 3 T11: 0.0446 T22: 0.0160 REMARK 3 T33: 0.1297 T12: -0.0434 REMARK 3 T13: -0.0364 T23: 0.0952 REMARK 3 L TENSOR REMARK 3 L11: 0.0033 L22: 0.0032 REMARK 3 L33: 0.0081 L12: 0.0009 REMARK 3 L13: 0.0013 L23: -0.0033 REMARK 3 S TENSOR REMARK 3 S11: 0.0206 S12: -0.0370 S13: -0.0511 REMARK 3 S21: -0.0020 S22: 0.0140 S23: 0.0473 REMARK 3 S31: 0.0489 S32: -0.0440 S33: -0.0097 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3QXD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-APR-11. REMARK 100 THE DEPOSITION ID IS D_1000064222. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.08 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : VERTICALLY FOCUSING MIRROR AND REMARK 200 HORIZONTALLY FOCUSING REMARK 200 MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43039 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.50 REMARK 200 R MERGE FOR SHELL (I) : 0.41000 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 2.1.4 REMARK 200 STARTING MODEL: PDB ENTRY 1SJE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.54 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, 10% GLYCEROL, 100MM SODIUM REMARK 280 ACETATE PH 5.6, 5MM DTT, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K 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 32.50050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 77.04500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.43500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 77.04500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.50050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.43500 REMARK 290 SMTRY3 4 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17920 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 7050 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -42.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 ILE A 1 REMARK 465 LYS A 2 REMARK 465 GLU A 3 REMARK 465 ALA A 182 REMARK 465 GLY B 1 REMARK 465 ILE D 1 REMARK 465 LYS D 2 REMARK 465 GLU D 3 REMARK 465 ALA D 182 REMARK 465 GLY E 1 REMARK 465 ALA F 101 REMARK 465 ALA C 101 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS E 65 CB CG CD CE NZ REMARK 470 GLN F 100 O CG CD OE1 NE2 REMARK 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 GLU A 98 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLN B 136 CG CD OE1 NE2 REMARK 480 TYR E 60 CG CD1 CD2 CE1 CE2 CZ OH REMARK 480 GLN E 107 CB CG CD OE1 NE2 REMARK 480 LEU E 109 CB CG CD1 CD2 REMARK 480 PRO C 87 N CA CB CG CD 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 413 O HOH A 415 1.85 REMARK 500 O HOH D 226 O HOH D 245 1.96 REMARK 500 O HOH D 392 O HOH E 386 2.01 REMARK 500 O HOH E 287 O HOH E 288 2.01 REMARK 500 O HOH D 293 O HOH D 321 2.02 REMARK 500 O HOH A 296 O HOH A 297 2.02 REMARK 500 O LEU A 175 O HOH A 319 2.04 REMARK 500 O HOH F 316 O HOH F 317 2.04 REMARK 500 O HOH A 236 O HOH A 353 2.04 REMARK 500 O HOH D 204 O HOH D 223 2.05 REMARK 500 O HOH A 332 O HOH A 389 2.09 REMARK 500 O HOH B 358 O HOH B 359 2.12 REMARK 500 O THR D 130 O HOH D 432 2.13 REMARK 500 O HOH B 412 O HOH B 424 2.14 REMARK 500 O PRO D 102 O HOH D 202 2.14 REMARK 500 O HOH B 202 O HOH D 186 2.15 REMARK 500 O HOH B 237 O HOH B 241 2.15 REMARK 500 O HOH A 356 O HOH C 402 2.17 REMARK 500 O HOH A 302 O HOH C 305 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 ASP A 27 40.37 38.36 REMARK 500 PRO A 102 133.54 -39.45 REMARK 500 ASN B 33 -104.02 59.60 REMARK 500 THR B 90 -76.63 -126.42 REMARK 500 ASN E 19 72.59 45.43 REMARK 500 ASN E 33 -111.09 58.63 REMARK 500 TYR E 78 -67.78 -120.49 REMARK 500 THR E 90 -70.72 -129.36 REMARK 500 LYS E 105 178.89 54.01 REMARK 500 VAL C 88 -56.28 60.63 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3QXA RELATED DB: PDB DBREF 3QXD A 1 182 UNP P01903 DRA_HUMAN 26 207 DBREF 3QXD B 1 190 UNP P04229 2B11_HUMAN 30 219 DBREF 3QXD D 1 182 UNP P01903 DRA_HUMAN 26 207 DBREF 3QXD E 1 190 UNP P04229 2B11_HUMAN 30 219 DBREF 3QXD F 87 101 UNP P04233 HG2A_HUMAN 103 117 DBREF 3QXD C 87 101 UNP P04233 HG2A_HUMAN 103 117 SEQADV 3QXD CYS A 54 UNP P01903 PHE 79 ENGINEERED MUTATION SEQADV 3QXD CYS D 54 UNP P01903 PHE 79 ENGINEERED MUTATION SEQRES 1 A 182 ILE LYS GLU GLU HIS VAL ILE ILE GLN ALA GLU PHE TYR SEQRES 2 A 182 LEU ASN PRO ASP GLN SER GLY GLU PHE MET PHE ASP PHE SEQRES 3 A 182 ASP GLY ASP GLU ILE PHE HIS VAL ASP MET ALA LYS LYS SEQRES 4 A 182 GLU THR VAL TRP ARG LEU GLU GLU PHE GLY ARG PHE ALA SEQRES 5 A 182 SER CYS GLU ALA GLN GLY ALA LEU ALA ASN ILE ALA VAL SEQRES 6 A 182 ASP LYS ALA ASN LEU GLU ILE MET THR LYS ARG SER ASN SEQRES 7 A 182 TYR THR PRO ILE THR ASN VAL PRO PRO GLU VAL THR VAL SEQRES 8 A 182 LEU THR ASN SER PRO VAL GLU LEU ARG GLU PRO ASN VAL SEQRES 9 A 182 LEU ILE CYS PHE ILE ASP LYS PHE THR PRO PRO VAL VAL SEQRES 10 A 182 ASN VAL THR TRP LEU ARG ASN GLY LYS PRO VAL THR THR SEQRES 11 A 182 GLY VAL SER GLU THR VAL PHE LEU PRO ARG GLU ASP HIS SEQRES 12 A 182 LEU PHE ARG LYS PHE HIS TYR LEU PRO PHE LEU PRO SER SEQRES 13 A 182 THR GLU ASP VAL TYR ASP CYS ARG VAL GLU HIS TRP GLY SEQRES 14 A 182 LEU ASP GLU PRO LEU LEU LYS HIS TRP GLU PHE ASP ALA SEQRES 1 B 190 GLY ASP THR ARG PRO ARG PHE LEU TRP GLN LEU LYS PHE SEQRES 2 B 190 GLU CYS HIS PHE PHE ASN GLY THR GLU ARG VAL ARG LEU SEQRES 3 B 190 LEU GLU ARG CYS ILE TYR ASN GLN GLU GLU SER VAL ARG SEQRES 4 B 190 PHE ASP SER ASP VAL GLY GLU TYR ARG ALA VAL THR GLU SEQRES 5 B 190 LEU GLY ARG PRO ASP ALA GLU TYR TRP ASN SER GLN LYS SEQRES 6 B 190 ASP LEU LEU GLU GLN ARG ARG ALA ALA VAL ASP THR TYR SEQRES 7 B 190 CYS ARG HIS ASN TYR GLY VAL GLY GLU SER PHE THR VAL SEQRES 8 B 190 GLN ARG ARG VAL GLU PRO LYS VAL THR VAL TYR PRO SER SEQRES 9 B 190 LYS THR GLN PRO LEU GLN HIS HIS ASN LEU LEU VAL CYS SEQRES 10 B 190 SER VAL SER GLY PHE TYR PRO GLY SER ILE GLU VAL ARG SEQRES 11 B 190 TRP PHE ARG ASN GLY GLN GLU GLU LYS ALA GLY VAL VAL SEQRES 12 B 190 SER THR GLY LEU ILE GLN ASN GLY ASP TRP THR PHE GLN SEQRES 13 B 190 THR LEU VAL MET LEU GLU THR VAL PRO ARG SER GLY GLU SEQRES 14 B 190 VAL TYR THR CYS GLN VAL GLU HIS PRO SER VAL THR SER SEQRES 15 B 190 PRO LEU THR VAL GLU TRP ARG ALA SEQRES 1 D 182 ILE LYS GLU GLU HIS VAL ILE ILE GLN ALA GLU PHE TYR SEQRES 2 D 182 LEU ASN PRO ASP GLN SER GLY GLU PHE MET PHE ASP PHE SEQRES 3 D 182 ASP GLY ASP GLU ILE PHE HIS VAL ASP MET ALA LYS LYS SEQRES 4 D 182 GLU THR VAL TRP ARG LEU GLU GLU PHE GLY ARG PHE ALA SEQRES 5 D 182 SER CYS GLU ALA GLN GLY ALA LEU ALA ASN ILE ALA VAL SEQRES 6 D 182 ASP LYS ALA ASN LEU GLU ILE MET THR LYS ARG SER ASN SEQRES 7 D 182 TYR THR PRO ILE THR ASN VAL PRO PRO GLU VAL THR VAL SEQRES 8 D 182 LEU THR ASN SER PRO VAL GLU LEU ARG GLU PRO ASN VAL SEQRES 9 D 182 LEU ILE CYS PHE ILE ASP LYS PHE THR PRO PRO VAL VAL SEQRES 10 D 182 ASN VAL THR TRP LEU ARG ASN GLY LYS PRO VAL THR THR SEQRES 11 D 182 GLY VAL SER GLU THR VAL PHE LEU PRO ARG GLU ASP HIS SEQRES 12 D 182 LEU PHE ARG LYS PHE HIS TYR LEU PRO PHE LEU PRO SER SEQRES 13 D 182 THR GLU ASP VAL TYR ASP CYS ARG VAL GLU HIS TRP GLY SEQRES 14 D 182 LEU ASP GLU PRO LEU LEU LYS HIS TRP GLU PHE ASP ALA SEQRES 1 E 190 GLY ASP THR ARG PRO ARG PHE LEU TRP GLN LEU LYS PHE SEQRES 2 E 190 GLU CYS HIS PHE PHE ASN GLY THR GLU ARG VAL ARG LEU SEQRES 3 E 190 LEU GLU ARG CYS ILE TYR ASN GLN GLU GLU SER VAL ARG SEQRES 4 E 190 PHE ASP SER ASP VAL GLY GLU TYR ARG ALA VAL THR GLU SEQRES 5 E 190 LEU GLY ARG PRO ASP ALA GLU TYR TRP ASN SER GLN LYS SEQRES 6 E 190 ASP LEU LEU GLU GLN ARG ARG ALA ALA VAL ASP THR TYR SEQRES 7 E 190 CYS ARG HIS ASN TYR GLY VAL GLY GLU SER PHE THR VAL SEQRES 8 E 190 GLN ARG ARG VAL GLU PRO LYS VAL THR VAL TYR PRO SER SEQRES 9 E 190 LYS THR GLN PRO LEU GLN HIS HIS ASN LEU LEU VAL CYS SEQRES 10 E 190 SER VAL SER GLY PHE TYR PRO GLY SER ILE GLU VAL ARG SEQRES 11 E 190 TRP PHE ARG ASN GLY GLN GLU GLU LYS ALA GLY VAL VAL SEQRES 12 E 190 SER THR GLY LEU ILE GLN ASN GLY ASP TRP THR PHE GLN SEQRES 13 E 190 THR LEU VAL MET LEU GLU THR VAL PRO ARG SER GLY GLU SEQRES 14 E 190 VAL TYR THR CYS GLN VAL GLU HIS PRO SER VAL THR SER SEQRES 15 E 190 PRO LEU THR VAL GLU TRP ARG ALA SEQRES 1 F 15 PRO VAL SER LYS MET ARG MET ALA THR PRO LEU LEU MET SEQRES 2 F 15 GLN ALA SEQRES 1 C 15 PRO VAL SER LYS MET ARG MET ALA THR PRO LEU LEU MET SEQRES 2 C 15 GLN ALA FORMUL 7 HOH *462(H2 O) HELIX 1 1 LEU A 45 ALA A 52 1 8 HELIX 2 2 ALA A 56 SER A 77 1 22 HELIX 3 3 THR B 51 LEU B 53 5 3 HELIX 4 4 GLY B 54 SER B 63 1 10 HELIX 5 5 GLN B 64 TYR B 78 1 15 HELIX 6 6 TYR B 78 GLU B 87 1 10 HELIX 7 7 SER B 88 THR B 90 5 3 HELIX 8 8 GLU D 47 PHE D 51 1 5 HELIX 9 9 GLU D 55 SER D 77 1 23 HELIX 10 10 THR E 51 LEU E 53 5 3 HELIX 11 11 GLY E 54 ASN E 62 1 9 HELIX 12 12 GLN E 64 ARG E 72 1 9 HELIX 13 13 ALA E 73 TYR E 78 1 6 HELIX 14 14 TYR E 78 GLU E 87 1 10 SHEET 1 A 8 GLU A 40 TRP A 43 0 SHEET 2 A 8 ASP A 29 ASP A 35 -1 N HIS A 33 O VAL A 42 SHEET 3 A 8 SER A 19 PHE A 26 -1 N PHE A 26 O ASP A 29 SHEET 4 A 8 HIS A 5 ASN A 15 -1 N ILE A 8 O ASP A 25 SHEET 5 A 8 PHE B 7 PHE B 18 -1 O CYS B 15 N ILE A 7 SHEET 6 A 8 ARG B 23 TYR B 32 -1 O ARG B 29 N LYS B 12 SHEET 7 A 8 GLU B 35 ASP B 41 -1 O PHE B 40 N GLU B 28 SHEET 8 A 8 TYR B 47 ALA B 49 -1 O ARG B 48 N ARG B 39 SHEET 1 B 4 GLU A 88 THR A 93 0 SHEET 2 B 4 ASN A 103 PHE A 112 -1 O ILE A 106 N LEU A 92 SHEET 3 B 4 PHE A 145 PHE A 153 -1 O LEU A 151 N LEU A 105 SHEET 4 B 4 SER A 133 GLU A 134 -1 N SER A 133 O TYR A 150 SHEET 1 C 4 GLU A 88 THR A 93 0 SHEET 2 C 4 ASN A 103 PHE A 112 -1 O ILE A 106 N LEU A 92 SHEET 3 C 4 PHE A 145 PHE A 153 -1 O LEU A 151 N LEU A 105 SHEET 4 C 4 LEU A 138 PRO A 139 -1 N LEU A 138 O ARG A 146 SHEET 1 D 4 LYS A 126 PRO A 127 0 SHEET 2 D 4 ASN A 118 ARG A 123 -1 N ARG A 123 O LYS A 126 SHEET 3 D 4 VAL A 160 GLU A 166 -1 O ARG A 164 N THR A 120 SHEET 4 D 4 LEU A 174 GLU A 179 -1 O TRP A 178 N TYR A 161 SHEET 1 E 4 LYS B 98 PRO B 103 0 SHEET 2 E 4 ASN B 113 PHE B 122 -1 O SER B 118 N THR B 100 SHEET 3 E 4 PHE B 155 THR B 163 -1 O VAL B 159 N CYS B 117 SHEET 4 E 4 VAL B 142 SER B 144 -1 N VAL B 143 O MET B 160 SHEET 1 F 4 LYS B 98 PRO B 103 0 SHEET 2 F 4 ASN B 113 PHE B 122 -1 O SER B 118 N THR B 100 SHEET 3 F 4 PHE B 155 THR B 163 -1 O VAL B 159 N CYS B 117 SHEET 4 F 4 ILE B 148 GLN B 149 -1 N ILE B 148 O GLN B 156 SHEET 1 G 4 GLN B 136 GLU B 138 0 SHEET 2 G 4 GLU B 128 ARG B 133 -1 N ARG B 133 O GLN B 136 SHEET 3 G 4 VAL B 170 GLU B 176 -1 O GLN B 174 N ARG B 130 SHEET 4 G 4 LEU B 184 ARG B 189 -1 O TRP B 188 N TYR B 171 SHEET 1 H 8 GLU D 40 TRP D 43 0 SHEET 2 H 8 ASP D 29 ASP D 35 -1 N ASP D 35 O GLU D 40 SHEET 3 H 8 SER D 19 PHE D 26 -1 N PHE D 26 O ASP D 29 SHEET 4 H 8 HIS D 5 ASN D 15 -1 N ILE D 8 O ASP D 25 SHEET 5 H 8 PHE E 7 PHE E 18 -1 O CYS E 15 N ILE D 7 SHEET 6 H 8 ARG E 23 TYR E 32 -1 O ARG E 29 N LYS E 12 SHEET 7 H 8 GLU E 35 ASP E 41 -1 O PHE E 40 N GLU E 28 SHEET 8 H 8 TYR E 47 ALA E 49 -1 O ARG E 48 N ARG E 39 SHEET 1 I 2 ALA D 52 SER D 53 0 SHEET 2 I 2 SER F 89 LYS F 90 1 O SER F 89 N SER D 53 SHEET 1 J 4 GLU D 88 THR D 93 0 SHEET 2 J 4 ASN D 103 PHE D 112 -1 O ILE D 106 N LEU D 92 SHEET 3 J 4 PHE D 145 PHE D 153 -1 O LEU D 151 N LEU D 105 SHEET 4 J 4 SER D 133 GLU D 134 -1 N SER D 133 O TYR D 150 SHEET 1 K 4 GLU D 88 THR D 93 0 SHEET 2 K 4 ASN D 103 PHE D 112 -1 O ILE D 106 N LEU D 92 SHEET 3 K 4 PHE D 145 PHE D 153 -1 O LEU D 151 N LEU D 105 SHEET 4 K 4 LEU D 138 PRO D 139 -1 N LEU D 138 O ARG D 146 SHEET 1 L 4 LYS D 126 VAL D 128 0 SHEET 2 L 4 ASN D 118 ARG D 123 -1 N ARG D 123 O LYS D 126 SHEET 3 L 4 TYR D 161 GLU D 166 -1 O ASP D 162 N LEU D 122 SHEET 4 L 4 LEU D 174 TRP D 178 -1 O LEU D 174 N VAL D 165 SHEET 1 M 4 LYS E 98 PRO E 103 0 SHEET 2 M 4 ASN E 113 PHE E 122 -1 O SER E 118 N THR E 100 SHEET 3 M 4 PHE E 155 THR E 163 -1 O THR E 163 N ASN E 113 SHEET 4 M 4 VAL E 142 SER E 144 -1 N VAL E 143 O MET E 160 SHEET 1 N 4 LYS E 98 PRO E 103 0 SHEET 2 N 4 ASN E 113 PHE E 122 -1 O SER E 118 N THR E 100 SHEET 3 N 4 PHE E 155 THR E 163 -1 O THR E 163 N ASN E 113 SHEET 4 N 4 ILE E 148 GLN E 149 -1 N ILE E 148 O GLN E 156 SHEET 1 O 4 GLN E 136 GLU E 138 0 SHEET 2 O 4 GLU E 128 ARG E 133 -1 N ARG E 133 O GLN E 136 SHEET 3 O 4 VAL E 170 GLU E 176 -1 O GLU E 176 N GLU E 128 SHEET 4 O 4 LEU E 184 ARG E 189 -1 O LEU E 184 N VAL E 175 SSBOND 1 CYS A 107 CYS A 163 1555 1555 2.03 SSBOND 2 CYS B 15 CYS B 79 1555 1555 2.05 SSBOND 3 CYS B 117 CYS B 173 1555 1555 2.02 SSBOND 4 CYS D 107 CYS D 163 1555 1555 2.03 SSBOND 5 CYS E 15 CYS E 79 1555 1555 2.05 SSBOND 6 CYS E 117 CYS E 173 1555 1555 2.03 CISPEP 1 ASN A 15 PRO A 16 0 3.23 CISPEP 2 THR A 113 PRO A 114 0 -1.25 CISPEP 3 TYR B 123 PRO B 124 0 3.46 CISPEP 4 ASN D 15 PRO D 16 0 -1.22 CISPEP 5 THR D 113 PRO D 114 0 -0.34 CISPEP 6 TYR E 123 PRO E 124 0 2.18 CRYST1 65.001 94.870 154.090 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.015384 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010541 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006490 0.00000