PDB Short entry for 3PGC HEADER IMMUNE SYSTEM 01-NOV-10 3PGC TITLE CRYSTAL STRUCTURE OF HLA-DR1 WITH CLIP106-120, FLIPPED PEPTIDE TITLE 2 ORIENTATION 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 26-217; COMPND 5 SYNONYM: MHC CLASS II ANTIGEN DRA; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: HLA CLASS II HISTOCOMPATIBILITY ANTIGEN, DRB1-1 BETA CHAIN; COMPND 9 CHAIN: B, E; COMPND 10 FRAGMENT: UNP RESIDUES 30-227; COMPND 11 SYNONYM: MHC CLASS II ANTIGEN DRB1*1, DR-1, DR1; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: HLA CLASS II HISTOCOMPATIBILITY ANTIGEN GAMMA CHAIN; COMPND 15 CHAIN: C, F; COMPND 16 FRAGMENT: UNP RESIDUES 106-120; COMPND 17 SYNONYM: HLA-DR ANTIGENS-ASSOCIATED INVARIANT CHAIN, IA ANTIGEN- COMPND 18 ASSOCIATED INVARIANT CHAIN, II, P33; 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: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET11A; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: HLA-DRB1; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PET24D; SOURCE 21 MOL_ID: 3; SOURCE 22 SYNTHETIC: YES; SOURCE 23 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 24 ORGANISM_COMMON: HUMAN; SOURCE 25 ORGANISM_TAXID: 9606 KEYWDS MHC CLASS II, MHC II, IMMUNE SYSTEM, SELF ANTIGEN, INVARIANT CHAIN, KEYWDS 2 CLIP EXPDTA X-RAY DIFFRACTION AUTHOR S.GUNTHER,A.SCHLUNDT,J.STICHT,Y.ROSKE,U.HEINEMANN,K.-H.WIESMULLER, AUTHOR 2 G.JUNG,K.FALK,O.ROTZSCHKE,C.FREUND REVDAT 2 05-JAN-11 3PGC 1 JRNL REVDAT 1 08-DEC-10 3PGC 0 JRNL AUTH S.GUNTHER,A.SCHLUNDT,J.STICHT,Y.ROSKE,U.HEINEMANN, JRNL AUTH 2 K.H.WIESMULLER,G.JUNG,K.FALK,O.ROTZSCHKE,C.FREUND JRNL TITL BIDIRECTIONAL BINDING OF INVARIANT CHAIN PEPTIDES TO AN MHC JRNL TITL 2 CLASS II MOLECULE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 107 22219 2010 JRNL REFN ISSN 0027-8424 JRNL PMID 21115828 JRNL DOI 10.1073/PNAS.1014708107 REMARK 2 REMARK 2 RESOLUTION. 2.66 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.5_2) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.66 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.54 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 33390 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1669 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 34.5370 - 5.7230 1.00 3307 174 0.1925 0.2384 REMARK 3 2 5.7230 - 4.5458 1.00 3209 168 0.1512 0.1683 REMARK 3 3 4.5458 - 3.9721 1.00 3182 168 0.1598 0.2135 REMARK 3 4 3.9721 - 3.6094 1.00 3162 166 0.1871 0.2426 REMARK 3 5 3.6094 - 3.3509 1.00 3174 168 0.1969 0.2510 REMARK 3 6 3.3509 - 3.1535 1.00 3142 165 0.2275 0.3134 REMARK 3 7 3.1535 - 2.9956 1.00 3116 164 0.2496 0.3338 REMARK 3 8 2.9956 - 2.8653 1.00 3179 167 0.2582 0.3375 REMARK 3 9 2.8653 - 2.7550 1.00 3096 163 0.2453 0.2974 REMARK 3 10 2.7550 - 2.6600 1.00 3154 166 0.2420 0.3304 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.29 REMARK 3 B_SOL : 31.32 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.370 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 57.69 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 53.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.64440 REMARK 3 B22 (A**2) : 3.64440 REMARK 3 B33 (A**2) : -7.28870 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 : 0.008 6233 REMARK 3 ANGLE : 1.132 8472 REMARK 3 CHIRALITY : 0.071 922 REMARK 3 PLANARITY : 0.005 1100 REMARK 3 DIHEDRAL : 19.314 2230 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 3PGC COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-NOV-10. REMARK 100 THE RCSB ID CODE IS RCSB062342. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-NOV-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91841 REMARK 200 MONOCHROMATOR : SILICON REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XSCALE REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33394 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.660 REMARK 200 RESOLUTION RANGE LOW (A) : 34.537 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.08100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.9600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.66 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.67900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.000 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 1500, MIB BUFFER, PH 6.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -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 34.84000 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 69.68000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 69.68000 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 34.84000 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: 7280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17560 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -47.0 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: 7850 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -45.0 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 MET A 0 REMARK 465 ILE A 1 REMARK 465 LYS A 2 REMARK 465 GLU A 3 REMARK 465 ASP A 181 REMARK 465 ALA A 182 REMARK 465 PRO A 183 REMARK 465 SER A 184 REMARK 465 PRO A 185 REMARK 465 LEU A 186 REMARK 465 PRO A 187 REMARK 465 GLU A 188 REMARK 465 THR A 189 REMARK 465 THR A 190 REMARK 465 GLU A 191 REMARK 465 ASN A 192 REMARK 465 MET B 0 REMARK 465 LYS B 105 REMARK 465 THR B 106 REMARK 465 GLN B 107 REMARK 465 PRO B 108 REMARK 465 LEU B 109 REMARK 465 GLN B 110 REMARK 465 HIS B 111 REMARK 465 HIS B 112 REMARK 465 GLU B 193 REMARK 465 SER B 194 REMARK 465 ALA B 195 REMARK 465 GLN B 196 REMARK 465 SER B 197 REMARK 465 LYS B 198 REMARK 465 MET D 0 REMARK 465 ILE D 1 REMARK 465 LYS D 2 REMARK 465 GLU D 3 REMARK 465 ALA D 182 REMARK 465 PRO D 183 REMARK 465 SER D 184 REMARK 465 PRO D 185 REMARK 465 LEU D 186 REMARK 465 PRO D 187 REMARK 465 GLU D 188 REMARK 465 THR D 189 REMARK 465 THR D 190 REMARK 465 GLU D 191 REMARK 465 ASN D 192 REMARK 465 MET E 0 REMARK 465 GLY E 1 REMARK 465 LYS E 105 REMARK 465 THR E 106 REMARK 465 GLN E 107 REMARK 465 PRO E 108 REMARK 465 LEU E 109 REMARK 465 GLN E 110 REMARK 465 HIS E 111 REMARK 465 HIS E 112 REMARK 465 ALA E 190 REMARK 465 ARG E 191 REMARK 465 SER E 192 REMARK 465 GLU E 193 REMARK 465 SER E 194 REMARK 465 ALA E 195 REMARK 465 GLN E 196 REMARK 465 SER E 197 REMARK 465 LYS E 198 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 ARG A 100 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 101 CG CD OE1 OE2 REMARK 470 LYS A 126 CG CD CE NZ REMARK 470 LYS B 65 CG CD CE NZ REMARK 470 ASN B 113 CG OD1 REMARK 470 GLU B 128 CG CD OE1 OE2 REMARK 470 GLN B 136 CG CD OE1 NE2 REMARK 470 ARG B 166 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 189 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 191 CG CD NE CZ NH1 NH2 REMARK 470 GLU E 35 CG CD OE1 OE2 REMARK 470 LYS E 65 CG CD CE NZ REMARK 470 ARG E 133 CG CD NE CZ NH1 NH2 REMARK 470 ASN E 134 CG OD1 REMARK 470 GLN E 136 CG CD OE1 NE2 REMARK 470 GLU E 162 CG CD OE1 OE2 REMARK 470 ARG E 166 CG CD NE CZ NH1 NH2 REMARK 470 GLU E 169 CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE1 GLN A 18 OE1 GLN A 18 6555 2.11 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 GLU A 55 104.12 -54.80 REMARK 500 ARG A 100 -7.32 82.23 REMARK 500 ASN B 19 76.48 52.46 REMARK 500 ASN B 33 -99.60 56.80 REMARK 500 TYR B 78 -57.92 -120.66 REMARK 500 TYR B 102 146.70 179.47 REMARK 500 PRO B 124 -169.47 -71.43 REMARK 500 TRP B 153 38.12 71.29 REMARK 500 PRO C 119 102.67 -51.15 REMARK 500 TYR D 79 35.10 72.34 REMARK 500 THR D 113 140.02 175.62 REMARK 500 ASN E 33 -110.21 44.42 REMARK 500 TYR E 78 -66.50 -126.76 REMARK 500 THR E 90 -74.98 -125.26 REMARK 500 ASN E 134 50.84 31.89 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 PEG D 193 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL D 194 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3PGD RELATED DB: PDB REMARK 900 RELATED ID: 3PDO RELATED DB: PDB DBREF 3PGC A 1 192 UNP P01903 DRA_HUMAN 26 217 DBREF 3PGC B 1 198 UNP P04229 2B11_HUMAN 30 227 DBREF 3PGC C 106 120 UNP P04233 HG2A_HUMAN 106 120 DBREF 3PGC D 1 192 UNP P01903 DRA_HUMAN 26 217 DBREF 3PGC E 1 198 UNP P04229 2B11_HUMAN 30 227 DBREF 3PGC F 106 120 UNP P04233 HG2A_HUMAN 106 120 SEQADV 3PGC MET A 0 UNP P01903 EXPRESSION TAG SEQADV 3PGC MET B 0 UNP P04229 EXPRESSION TAG SEQADV 3PGC MET D 0 UNP P01903 EXPRESSION TAG SEQADV 3PGC MET E 0 UNP P04229 EXPRESSION TAG SEQRES 1 A 193 MET ILE LYS GLU GLU HIS VAL ILE ILE GLN ALA GLU PHE SEQRES 2 A 193 TYR LEU ASN PRO ASP GLN SER GLY GLU PHE MET PHE ASP SEQRES 3 A 193 PHE ASP GLY ASP GLU ILE PHE HIS VAL ASP MET ALA LYS SEQRES 4 A 193 LYS GLU THR VAL TRP ARG LEU GLU GLU PHE GLY ARG PHE SEQRES 5 A 193 ALA SER PHE GLU ALA GLN GLY ALA LEU ALA ASN ILE ALA SEQRES 6 A 193 VAL ASP LYS ALA ASN LEU GLU ILE MET THR LYS ARG SER SEQRES 7 A 193 ASN TYR THR PRO ILE THR ASN VAL PRO PRO GLU VAL THR SEQRES 8 A 193 VAL LEU THR ASN SER PRO VAL GLU LEU ARG GLU PRO ASN SEQRES 9 A 193 VAL LEU ILE CYS PHE ILE ASP LYS PHE THR PRO PRO VAL SEQRES 10 A 193 VAL ASN VAL THR TRP LEU ARG ASN GLY LYS PRO VAL THR SEQRES 11 A 193 THR GLY VAL SER GLU THR VAL PHE LEU PRO ARG GLU ASP SEQRES 12 A 193 HIS LEU PHE ARG LYS PHE HIS TYR LEU PRO PHE LEU PRO SEQRES 13 A 193 SER THR GLU ASP VAL TYR ASP CYS ARG VAL GLU HIS TRP SEQRES 14 A 193 GLY LEU ASP GLU PRO LEU LEU LYS HIS TRP GLU PHE ASP SEQRES 15 A 193 ALA PRO SER PRO LEU PRO GLU THR THR GLU ASN SEQRES 1 B 199 MET GLY ASP THR ARG PRO ARG PHE LEU TRP GLN LEU LYS SEQRES 2 B 199 PHE GLU CYS HIS PHE PHE ASN GLY THR GLU ARG VAL ARG SEQRES 3 B 199 LEU LEU GLU ARG CYS ILE TYR ASN GLN GLU GLU SER VAL SEQRES 4 B 199 ARG PHE ASP SER ASP VAL GLY GLU TYR ARG ALA VAL THR SEQRES 5 B 199 GLU LEU GLY ARG PRO ASP ALA GLU TYR TRP ASN SER GLN SEQRES 6 B 199 LYS ASP LEU LEU GLU GLN ARG ARG ALA ALA VAL ASP THR SEQRES 7 B 199 TYR CYS ARG HIS ASN TYR GLY VAL GLY GLU SER PHE THR SEQRES 8 B 199 VAL GLN ARG ARG VAL GLU PRO LYS VAL THR VAL TYR PRO SEQRES 9 B 199 SER LYS THR GLN PRO LEU GLN HIS HIS ASN LEU LEU VAL SEQRES 10 B 199 CYS SER VAL SER GLY PHE TYR PRO GLY SER ILE GLU VAL SEQRES 11 B 199 ARG TRP PHE ARG ASN GLY GLN GLU GLU LYS ALA GLY VAL SEQRES 12 B 199 VAL SER THR GLY LEU ILE GLN ASN GLY ASP TRP THR PHE SEQRES 13 B 199 GLN THR LEU VAL MET LEU GLU THR VAL PRO ARG SER GLY SEQRES 14 B 199 GLU VAL TYR THR CYS GLN VAL GLU HIS PRO SER VAL THR SEQRES 15 B 199 SER PRO LEU THR VAL GLU TRP ARG ALA ARG SER GLU SER SEQRES 16 B 199 ALA GLN SER LYS SEQRES 1 C 15 LYS MET ARG MET ALA THR PRO LEU LEU MET GLN ALA LEU SEQRES 2 C 15 PRO MET SEQRES 1 D 193 MET ILE LYS GLU GLU HIS VAL ILE ILE GLN ALA GLU PHE SEQRES 2 D 193 TYR LEU ASN PRO ASP GLN SER GLY GLU PHE MET PHE ASP SEQRES 3 D 193 PHE ASP GLY ASP GLU ILE PHE HIS VAL ASP MET ALA LYS SEQRES 4 D 193 LYS GLU THR VAL TRP ARG LEU GLU GLU PHE GLY ARG PHE SEQRES 5 D 193 ALA SER PHE GLU ALA GLN GLY ALA LEU ALA ASN ILE ALA SEQRES 6 D 193 VAL ASP LYS ALA ASN LEU GLU ILE MET THR LYS ARG SER SEQRES 7 D 193 ASN TYR THR PRO ILE THR ASN VAL PRO PRO GLU VAL THR SEQRES 8 D 193 VAL LEU THR ASN SER PRO VAL GLU LEU ARG GLU PRO ASN SEQRES 9 D 193 VAL LEU ILE CYS PHE ILE ASP LYS PHE THR PRO PRO VAL SEQRES 10 D 193 VAL ASN VAL THR TRP LEU ARG ASN GLY LYS PRO VAL THR SEQRES 11 D 193 THR GLY VAL SER GLU THR VAL PHE LEU PRO ARG GLU ASP SEQRES 12 D 193 HIS LEU PHE ARG LYS PHE HIS TYR LEU PRO PHE LEU PRO SEQRES 13 D 193 SER THR GLU ASP VAL TYR ASP CYS ARG VAL GLU HIS TRP SEQRES 14 D 193 GLY LEU ASP GLU PRO LEU LEU LYS HIS TRP GLU PHE ASP SEQRES 15 D 193 ALA PRO SER PRO LEU PRO GLU THR THR GLU ASN SEQRES 1 E 199 MET GLY ASP THR ARG PRO ARG PHE LEU TRP GLN LEU LYS SEQRES 2 E 199 PHE GLU CYS HIS PHE PHE ASN GLY THR GLU ARG VAL ARG SEQRES 3 E 199 LEU LEU GLU ARG CYS ILE TYR ASN GLN GLU GLU SER VAL SEQRES 4 E 199 ARG PHE ASP SER ASP VAL GLY GLU TYR ARG ALA VAL THR SEQRES 5 E 199 GLU LEU GLY ARG PRO ASP ALA GLU TYR TRP ASN SER GLN SEQRES 6 E 199 LYS ASP LEU LEU GLU GLN ARG ARG ALA ALA VAL ASP THR SEQRES 7 E 199 TYR CYS ARG HIS ASN TYR GLY VAL GLY GLU SER PHE THR SEQRES 8 E 199 VAL GLN ARG ARG VAL GLU PRO LYS VAL THR VAL TYR PRO SEQRES 9 E 199 SER LYS THR GLN PRO LEU GLN HIS HIS ASN LEU LEU VAL SEQRES 10 E 199 CYS SER VAL SER GLY PHE TYR PRO GLY SER ILE GLU VAL SEQRES 11 E 199 ARG TRP PHE ARG ASN GLY GLN GLU GLU LYS ALA GLY VAL SEQRES 12 E 199 VAL SER THR GLY LEU ILE GLN ASN GLY ASP TRP THR PHE SEQRES 13 E 199 GLN THR LEU VAL MET LEU GLU THR VAL PRO ARG SER GLY SEQRES 14 E 199 GLU VAL TYR THR CYS GLN VAL GLU HIS PRO SER VAL THR SEQRES 15 E 199 SER PRO LEU THR VAL GLU TRP ARG ALA ARG SER GLU SER SEQRES 16 E 199 ALA GLN SER LYS SEQRES 1 F 15 LYS MET ARG MET ALA THR PRO LEU LEU MET GLN ALA LEU SEQRES 2 F 15 PRO MET HET PEG D 193 7 HET GOL D 194 6 HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 7 PEG C4 H10 O3 FORMUL 8 GOL C3 H8 O3 FORMUL 9 HOH *115(H2 O) HELIX 1 1 LEU A 45 ARG A 50 5 6 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 ALA B 73 1 10 HELIX 6 6 ALA B 73 TYR B 78 1 6 HELIX 7 7 TYR B 78 GLU B 87 1 10 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 TYR E 78 1 15 HELIX 13 13 TYR E 78 GLU E 87 1 10 HELIX 14 14 SER E 88 THR E 90 5 3 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 PHE B 7 N ASN A 15 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 SER B 37 N CYS B 30 SHEET 8 A 8 TYR B 47 ALA B 49 -1 O ARG B 48 N ARG B 39 SHEET 1 B 2 ALA A 52 SER A 53 0 SHEET 2 B 2 GLN C 116 ALA C 117 -1 O GLN C 116 N SER A 53 SHEET 1 C 4 GLU A 88 THR A 93 0 SHEET 2 C 4 ASN A 103 PHE A 112 -1 O PHE A 108 N THR A 90 SHEET 3 C 4 PHE A 145 PHE A 153 -1 O HIS A 149 N CYS A 107 SHEET 4 C 4 SER A 133 GLU A 134 -1 N SER A 133 O TYR A 150 SHEET 1 D 4 GLU A 88 THR A 93 0 SHEET 2 D 4 ASN A 103 PHE A 112 -1 O PHE A 108 N THR A 90 SHEET 3 D 4 PHE A 145 PHE A 153 -1 O HIS A 149 N CYS A 107 SHEET 4 D 4 LEU A 138 PRO A 139 -1 N LEU A 138 O ARG A 146 SHEET 1 E 4 LYS A 126 VAL A 128 0 SHEET 2 E 4 ASN A 118 ARG A 123 -1 N TRP A 121 O VAL A 128 SHEET 3 E 4 TYR A 161 GLU A 166 -1 O ARG A 164 N THR A 120 SHEET 4 E 4 LEU A 174 TRP A 178 -1 O TRP A 178 N TYR A 161 SHEET 1 F 4 LYS B 98 PRO B 103 0 SHEET 2 F 4 LEU B 114 PHE B 122 -1 O SER B 120 N LYS B 98 SHEET 3 F 4 PHE B 155 GLU B 162 -1 O LEU B 161 N LEU B 115 SHEET 4 F 4 VAL B 142 SER B 144 -1 N VAL B 143 O MET B 160 SHEET 1 G 4 LYS B 98 PRO B 103 0 SHEET 2 G 4 LEU B 114 PHE B 122 -1 O SER B 120 N LYS B 98 SHEET 3 G 4 PHE B 155 GLU B 162 -1 O LEU B 161 N LEU B 115 SHEET 4 G 4 ILE B 148 GLN B 149 -1 N ILE B 148 O GLN B 156 SHEET 1 H 4 GLN B 136 GLU B 138 0 SHEET 2 H 4 GLU B 128 ARG B 133 -1 N ARG B 133 O GLN B 136 SHEET 3 H 4 TYR B 171 GLU B 176 -1 O GLU B 176 N GLU B 128 SHEET 4 H 4 LEU B 184 TRP B 188 -1 O LEU B 184 N VAL B 175 SHEET 1 I 8 GLU D 40 TRP D 43 0 SHEET 2 I 8 ASP D 29 ASP D 35 -1 N HIS D 33 O VAL D 42 SHEET 3 I 8 SER D 19 PHE D 26 -1 N PHE D 26 O ASP D 29 SHEET 4 I 8 HIS D 5 ASN D 15 -1 N ALA D 10 O MET D 23 SHEET 5 I 8 PHE E 7 PHE E 18 -1 O PHE E 13 N GLN D 9 SHEET 6 I 8 ARG E 23 TYR E 32 -1 O ARG E 25 N HIS E 16 SHEET 7 I 8 GLU E 35 ASP E 41 -1 O GLU E 35 N TYR E 32 SHEET 8 I 8 TYR E 47 ALA E 49 -1 O ARG E 48 N ARG E 39 SHEET 1 J 2 ALA D 52 SER D 53 0 SHEET 2 J 2 GLN F 116 ALA F 117 -1 O GLN F 116 N SER D 53 SHEET 1 K 4 GLU D 88 THR D 93 0 SHEET 2 K 4 ASN D 103 PHE D 112 -1 O ASP D 110 N GLU D 88 SHEET 3 K 4 PHE D 145 PHE D 153 -1 O LEU D 151 N LEU D 105 SHEET 4 K 4 SER D 133 GLU D 134 -1 N SER D 133 O TYR D 150 SHEET 1 L 4 GLU D 88 THR D 93 0 SHEET 2 L 4 ASN D 103 PHE D 112 -1 O ASP D 110 N GLU D 88 SHEET 3 L 4 PHE D 145 PHE D 153 -1 O LEU D 151 N LEU D 105 SHEET 4 L 4 LEU D 138 PRO D 139 -1 N LEU D 138 O ARG D 146 SHEET 1 M 4 LYS D 126 VAL D 128 0 SHEET 2 M 4 ASN D 118 ARG D 123 -1 N ARG D 123 O LYS D 126 SHEET 3 M 4 VAL D 160 GLU D 166 -1 O ARG D 164 N THR D 120 SHEET 4 M 4 LEU D 174 GLU D 179 -1 O LEU D 174 N VAL D 165 SHEET 1 N 4 LYS E 98 PRO E 103 0 SHEET 2 N 4 LEU E 114 PHE E 122 -1 O SER E 120 N LYS E 98 SHEET 3 N 4 PHE E 155 GLU E 162 -1 O VAL E 159 N CYS E 117 SHEET 4 N 4 VAL E 142 SER E 144 -1 N VAL E 143 O MET E 160 SHEET 1 O 4 LYS E 98 PRO E 103 0 SHEET 2 O 4 LEU E 114 PHE E 122 -1 O SER E 120 N LYS E 98 SHEET 3 O 4 PHE E 155 GLU E 162 -1 O VAL E 159 N CYS E 117 SHEET 4 O 4 ILE E 148 GLN E 149 -1 N ILE E 148 O GLN E 156 SHEET 1 P 4 GLN E 136 GLU E 138 0 SHEET 2 P 4 GLU E 128 ARG E 133 -1 N TRP E 131 O GLU E 138 SHEET 3 P 4 TYR E 171 GLU E 176 -1 O GLN E 174 N ARG E 130 SHEET 4 P 4 LEU E 184 TRP E 188 -1 O VAL E 186 N CYS E 173 SSBOND 1 CYS A 107 CYS A 163 1555 1555 2.06 SSBOND 2 CYS B 15 CYS B 79 1555 1555 2.05 SSBOND 3 CYS B 117 CYS B 173 1555 1555 2.05 SSBOND 4 CYS D 107 CYS D 163 1555 1555 2.04 SSBOND 5 CYS E 15 CYS E 79 1555 1555 2.08 SSBOND 6 CYS E 117 CYS E 173 1555 1555 2.03 CISPEP 1 ASN A 15 PRO A 16 0 5.65 CISPEP 2 THR A 113 PRO A 114 0 1.35 CISPEP 3 TYR B 123 PRO B 124 0 2.15 CISPEP 4 ASN D 15 PRO D 16 0 2.97 CISPEP 5 THR D 113 PRO D 114 0 5.03 CISPEP 6 TYR E 123 PRO E 124 0 2.92 SITE 1 AC1 1 GLU D 4 SITE 1 AC2 4 LEU D 45 GLU D 46 GLU D 47 ARG E 93 CRYST1 138.146 138.146 104.520 90.00 90.00 120.00 P 31 2 1 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 0.007239 0.004179 0.000000 0.00000 SCALE2 0.000000 0.008359 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009568 0.00000