HEADER IMMUNE SYSTEM 19-SEP-23 8U9G TITLE HUMAN CLASS I MHC HLA-A2 BOUND TO SORTING NEXIN 24 (127-135) TITLE 2 NEOANTIGEN KLSHQLVLL COMPND MOL_ID: 1; COMPND 2 MOLECULE: HLA-A*02:01 ALPHA CHAIN; COMPND 3 CHAIN: A, D; COMPND 4 SYNONYM: HLA CLASS I ANTIGEN, HLA CLASS I HISTOCOMPATIBILITY ANTIGEN, COMPND 5 HLA CLASS I HISTOCOMPATIBILITY ANTIGEN A ALPHA CHAIN,A ALPHA CHAIN, COMPND 6 MHC CLASS I ANTIGEN,MHC CLASS I PROTEIN,MHC CLASS I PROTEIN (HLA-A); COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 10 CHAIN: B, E; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: SORTING NEXIN 24 (127-135)(P132L) PEPTIDE; COMPND 14 CHAIN: C, F; COMPND 15 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-A, HLA; 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: B2M, CDABP0092, HDCMA22P; 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_TAXID: 9606 KEYWDS COMPLEX, MHC-I, ANTIGEN PRESENTATION, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR A.ARBUISO,L.I.WEISS,C.A.BRAMBLEY,J.MA,G.L.J.KELLER,C.M.AYRES, AUTHOR 2 B.M.BAKER REVDAT 2 14-FEB-24 8U9G 1 JRNL REVDAT 1 10-JAN-24 8U9G 0 JRNL AUTH V.MIKHAYLOV,C.A.BRAMBLEY,G.L.J.KELLER,A.G.ARBUISO,L.I.WEISS, JRNL AUTH 2 B.M.BAKER,A.J.LEVINE JRNL TITL ACCURATE MODELING OF PEPTIDE-MHC STRUCTURES WITH ALPHAFOLD. JRNL REF STRUCTURE V. 32 228 2024 JRNL REFN ISSN 0969-2126 JRNL PMID 38113889 JRNL DOI 10.1016/J.STR.2023.11.011 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.V.AFONINE,R.W.GROSSE-KUNSTLEVE,N.ECHOLS,J.J.HEADD, REMARK 1 AUTH 2 N.W.MORIARTY,M.MUSTYAKIMOV,T.C.TERWILLIGER,A.URZHUMTSEV, REMARK 1 AUTH 3 P.H.ZWART,P.D.ADAMS REMARK 1 TITL TOWARDS AUTOMATED CRYSTALLOGRAPHIC STRUCTURE REFINEMENT WITH REMARK 1 TITL 2 PHENIX.REFINE. REMARK 1 REF ACTA CRYSTALLOGR D BIOL V. 68 352 2012 REMARK 1 REF 2 CRYSTALLOGR REMARK 1 REFN ESSN 1399-0047 REMARK 2 REMARK 2 RESOLUTION. 2.87 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.20.1_4487: ???) 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) : 2.87 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 59.92 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 18706 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL 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 59.9200 - 5.2200 0.00 0 0 0.0000 0.0000 REMARK 3 2 5.2100 - 4.1400 1.00 2989 148 0.1574 0.1944 REMARK 3 3 4.1400 - 3.6200 1.00 3048 112 0.1824 0.2233 REMARK 3 4 3.6200 - 3.2900 0.96 2894 124 0.2225 0.2932 REMARK 3 5 3.2900 - 3.0500 0.99 2946 164 0.2327 0.2972 REMARK 3 6 3.0500 - 2.8700 0.99 2942 152 0.2488 0.3095 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 : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.310 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.290 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 NULL REMARK 3 ANGLE : 0.888 NULL REMARK 3 CHIRALITY : 0.050 900 REMARK 3 PLANARITY : 0.013 1147 REMARK 3 DIHEDRAL : 8.771 879 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 180 ) REMARK 3 ORIGIN FOR THE GROUP (A): 23.4621 -3.4339 20.1856 REMARK 3 T TENSOR REMARK 3 T11: -0.0559 T22: -0.0660 REMARK 3 T33: -0.2040 T12: 0.0152 REMARK 3 T13: 0.0508 T23: -0.0545 REMARK 3 L TENSOR REMARK 3 L11: 0.0032 L22: 0.0041 REMARK 3 L33: 0.0246 L12: 0.0034 REMARK 3 L13: 0.0169 L23: -0.0082 REMARK 3 S TENSOR REMARK 3 S11: 0.2053 S12: -0.1400 S13: -0.0047 REMARK 3 S21: -0.0263 S22: 0.1534 S23: -0.1001 REMARK 3 S31: 0.1695 S32: -0.1142 S33: 0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 181 THROUGH 275 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.1505 -6.9431 4.1172 REMARK 3 T TENSOR REMARK 3 T11: 0.0516 T22: 0.0446 REMARK 3 T33: 0.0476 T12: 0.0080 REMARK 3 T13: -0.0019 T23: 0.0096 REMARK 3 L TENSOR REMARK 3 L11: 0.0121 L22: -0.0006 REMARK 3 L33: 0.0025 L12: 0.0121 REMARK 3 L13: 0.0012 L23: -0.0043 REMARK 3 S TENSOR REMARK 3 S11: 0.0280 S12: -0.0983 S13: -0.0481 REMARK 3 S21: -0.0757 S22: 0.0135 S23: 0.0227 REMARK 3 S31: -0.0419 S32: 0.0468 S33: 0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 100 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.3813 11.5457 12.0367 REMARK 3 T TENSOR REMARK 3 T11: -0.0251 T22: 0.0914 REMARK 3 T33: 0.0201 T12: -0.0144 REMARK 3 T13: -0.0327 T23: -0.0158 REMARK 3 L TENSOR REMARK 3 L11: 0.0016 L22: 0.0003 REMARK 3 L33: 0.0034 L12: -0.0004 REMARK 3 L13: -0.0004 L23: 0.0096 REMARK 3 S TENSOR REMARK 3 S11: 0.0199 S12: 0.0173 S13: 0.0653 REMARK 3 S21: 0.0485 S22: -0.0280 S23: -0.0117 REMARK 3 S31: -0.0073 S32: -0.0506 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 180) REMARK 3 ORIGIN FOR THE GROUP (A): 5.5087 -39.0072 35.4038 REMARK 3 T TENSOR REMARK 3 T11: -0.1793 T22: -0.1365 REMARK 3 T33: -0.0965 T12: -0.1562 REMARK 3 T13: -0.0706 T23: -0.1200 REMARK 3 L TENSOR REMARK 3 L11: 0.0362 L22: 0.0016 REMARK 3 L33: 0.0074 L12: -0.0189 REMARK 3 L13: -0.0195 L23: 0.0217 REMARK 3 S TENSOR REMARK 3 S11: 0.0823 S12: -0.1063 S13: 0.0062 REMARK 3 S21: -0.1203 S22: 0.0403 S23: 0.0960 REMARK 3 S31: -0.0148 S32: -0.0500 S33: -0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 1 THROUGH 100 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.6591 -53.8481 27.1756 REMARK 3 T TENSOR REMARK 3 T11: -0.0520 T22: -0.3142 REMARK 3 T33: -0.1050 T12: 0.0296 REMARK 3 T13: 0.0040 T23: 0.1868 REMARK 3 L TENSOR REMARK 3 L11: -0.0001 L22: -0.0028 REMARK 3 L33: -0.0039 L12: -0.0009 REMARK 3 L13: -0.0002 L23: -0.0016 REMARK 3 S TENSOR REMARK 3 S11: 0.0077 S12: 0.0062 S13: -0.0557 REMARK 3 S21: 0.0999 S22: 0.0811 S23: -0.0052 REMARK 3 S31: 0.1121 S32: 0.0291 S33: -0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 1 THROUGH 9) REMARK 3 ORIGIN FOR THE GROUP (A): 30.8067 -4.5560 23.5001 REMARK 3 T TENSOR REMARK 3 T11: 0.0455 T22: -0.0401 REMARK 3 T33: 0.0645 T12: -0.0585 REMARK 3 T13: 0.0677 T23: 0.0320 REMARK 3 L TENSOR REMARK 3 L11: -0.0017 L22: 0.0007 REMARK 3 L33: -0.0001 L12: 0.0000 REMARK 3 L13: -0.0013 L23: 0.0010 REMARK 3 S TENSOR REMARK 3 S11: 0.0025 S12: -0.0167 S13: -0.0007 REMARK 3 S21: -0.0110 S22: -0.0123 S23: -0.0123 REMARK 3 S31: 0.0043 S32: -0.0040 S33: -0.0000 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'F' AND (RESID 1 THROUGH 9 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.6600 -38.1172 39.0063 REMARK 3 T TENSOR REMARK 3 T11: 0.0721 T22: 0.1131 REMARK 3 T33: 0.0965 T12: 0.0253 REMARK 3 T13: 0.0089 T23: -0.0454 REMARK 3 L TENSOR REMARK 3 L11: -0.0006 L22: -0.0007 REMARK 3 L33: 0.0004 L12: 0.0008 REMARK 3 L13: -0.0003 L23: 0.0002 REMARK 3 S TENSOR REMARK 3 S11: 0.0062 S12: -0.0136 S13: 0.0149 REMARK 3 S21: -0.0007 S22: -0.0054 S23: 0.0078 REMARK 3 S31: -0.0111 S32: 0.0073 S33: -0.0000 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 181 THROUGH 275 ) REMARK 3 ORIGIN FOR THE GROUP (A): 36.1645 -35.3374 19.3963 REMARK 3 T TENSOR REMARK 3 T11: -0.0493 T22: -0.2756 REMARK 3 T33: 0.0162 T12: -0.1529 REMARK 3 T13: -0.0057 T23: -0.0227 REMARK 3 L TENSOR REMARK 3 L11: -0.0057 L22: 0.0006 REMARK 3 L33: 0.0028 L12: -0.0079 REMARK 3 L13: 0.0019 L23: 0.0023 REMARK 3 S TENSOR REMARK 3 S11: 0.0301 S12: -0.0587 S13: 0.0417 REMARK 3 S21: -0.0763 S22: 0.1049 S23: -0.0171 REMARK 3 S31: 0.0285 S32: 0.0269 S33: -0.0000 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 8U9G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-SEP-23. REMARK 100 THE DEPOSITION ID IS D_1000277636. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-OCT-21 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 : APS REMARK 200 BEAMLINE : 24-ID-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS REMARK 200 DATA SCALING SOFTWARE : DIALS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18717 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.870 REMARK 200 RESOLUTION RANGE LOW (A) : 59.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.17080 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.1600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.87 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.97 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 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PURIFIED PROTEIN COMPLEXES WERE REMARK 280 CONCENTRATED TO 7.4 MG/ML BEFORE CRYSTALLIZATION. THE CRYSTALS REMARK 280 WERE GROWN IN 12.5% PEG 4000 AND 0.1 M MES (PH 6.5) VIA HANGING REMARK 280 DROP VAPOR DIFFUSION. CRYSTALS WERE HARVESTED AND CRYOPROTECTED REMARK 280 IN 8% GLYCEROL/92% MOTHER LIQUOR AND IMMEDIATELY STORED IN REMARK 280 LIQUID NITROGEN, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 277.15K 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 42.71600 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 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: 5040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 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 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 CA ALA D 139 O3S MES D 301 1455 2.12 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 A 2 CB SER A 2 OG 0.078 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 29 -121.52 48.37 REMARK 500 HIS A 114 107.24 -164.92 REMARK 500 ASP A 122 133.26 -39.58 REMARK 500 TRP A 274 45.16 -102.80 REMARK 500 TRP B 60 3.67 80.52 REMARK 500 ASP D 29 -123.19 48.28 REMARK 500 LEU D 110 -61.43 -108.27 REMARK 500 HIS D 114 105.83 -165.24 REMARK 500 GLN D 224 49.29 -107.36 REMARK 500 TRP D 274 42.76 -102.47 REMARK 500 TRP E 60 4.06 81.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG D 97 0.08 SIDE CHAIN REMARK 500 ARG E 81 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LYS F 1 -15.38 REMARK 500 REMARK 500 REMARK: NULL DBREF 8U9G A 1 275 UNP Q53Z42 Q53Z42_HUMAN 25 299 DBREF 8U9G B 1 99 UNP P61769 B2MG_HUMAN 21 119 DBREF 8U9G D 1 275 UNP Q53Z42 Q53Z42_HUMAN 25 299 DBREF 8U9G E 1 99 UNP P61769 B2MG_HUMAN 21 119 DBREF 8U9G C 1 9 PDB 8U9G 8U9G 1 9 DBREF 8U9G F 1 9 PDB 8U9G 8U9G 1 9 SEQADV 8U9G MET B 0 UNP P61769 INITIATING METHIONINE SEQADV 8U9G MET E 0 UNP P61769 INITIATING METHIONINE 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 D 275 GLY SER HIS SER MET ARG TYR PHE PHE THR SER VAL SER SEQRES 2 D 275 ARG PRO GLY ARG GLY GLU PRO ARG PHE ILE ALA VAL GLY SEQRES 3 D 275 TYR VAL ASP ASP THR GLN PHE VAL ARG PHE ASP SER ASP SEQRES 4 D 275 ALA ALA SER GLN ARG MET GLU PRO ARG ALA PRO TRP ILE SEQRES 5 D 275 GLU GLN GLU GLY PRO GLU TYR TRP ASP GLY GLU THR ARG SEQRES 6 D 275 LYS VAL LYS ALA HIS SER GLN THR HIS ARG VAL ASP LEU SEQRES 7 D 275 GLY THR LEU ARG GLY TYR TYR ASN GLN SER GLU ALA GLY SEQRES 8 D 275 SER HIS THR VAL GLN ARG MET TYR GLY CYS ASP VAL GLY SEQRES 9 D 275 SER ASP TRP ARG PHE LEU ARG GLY TYR HIS GLN TYR ALA SEQRES 10 D 275 TYR ASP GLY LYS ASP TYR ILE ALA LEU LYS GLU ASP LEU SEQRES 11 D 275 ARG SER TRP THR ALA ALA ASP MET ALA ALA GLN THR THR SEQRES 12 D 275 LYS HIS LYS TRP GLU ALA ALA HIS VAL ALA GLU GLN LEU SEQRES 13 D 275 ARG ALA TYR LEU GLU GLY THR CYS VAL GLU TRP LEU ARG SEQRES 14 D 275 ARG TYR LEU GLU ASN GLY LYS GLU THR LEU GLN ARG THR SEQRES 15 D 275 ASP ALA PRO LYS THR HIS MET THR HIS HIS ALA VAL SER SEQRES 16 D 275 ASP HIS GLU ALA THR LEU ARG CYS TRP ALA LEU SER PHE SEQRES 17 D 275 TYR PRO ALA GLU ILE THR LEU THR TRP GLN ARG ASP GLY SEQRES 18 D 275 GLU ASP GLN THR GLN ASP THR GLU LEU VAL GLU THR ARG SEQRES 19 D 275 PRO ALA GLY ASP GLY THR PHE GLN LYS TRP ALA ALA VAL SEQRES 20 D 275 VAL VAL PRO SER GLY GLN GLU GLN ARG TYR THR CYS HIS SEQRES 21 D 275 VAL GLN HIS GLU GLY LEU PRO LYS PRO LEU THR LEU ARG SEQRES 22 D 275 TRP GLU SEQRES 1 E 100 MET ILE GLN ARG THR PRO LYS ILE GLN VAL TYR SER ARG SEQRES 2 E 100 HIS PRO ALA GLU ASN GLY LYS SER ASN PHE LEU ASN CYS SEQRES 3 E 100 TYR VAL SER GLY PHE HIS PRO SER ASP ILE GLU VAL ASP SEQRES 4 E 100 LEU LEU LYS ASN GLY GLU ARG ILE GLU LYS VAL GLU HIS SEQRES 5 E 100 SER ASP LEU SER PHE SER LYS ASP TRP SER PHE TYR LEU SEQRES 6 E 100 LEU TYR TYR THR GLU PHE THR PRO THR GLU LYS ASP GLU SEQRES 7 E 100 TYR ALA CYS ARG VAL ASN HIS VAL THR LEU SER GLN PRO SEQRES 8 E 100 LYS ILE VAL LYS TRP ASP ARG ASP MET SEQRES 1 C 9 LYS LEU SER HIS GLN LEU VAL LEU LEU SEQRES 1 F 9 LYS LEU SER HIS GLN LEU VAL LEU LEU HET PEG A 301 7 HET MES D 301 12 HET GOL E 101 6 HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 7 PEG C4 H10 O3 FORMUL 8 MES C6 H13 N O4 S FORMUL 9 GOL C3 H8 O3 FORMUL 10 HOH *49(H2 O) HELIX 1 AA1 ALA A 49 GLU A 53 5 5 HELIX 2 AA2 GLY A 56 TYR A 85 1 30 HELIX 3 AA3 ASP A 137 ALA A 150 1 14 HELIX 4 AA4 HIS A 151 GLY A 162 1 12 HELIX 5 AA5 GLY A 162 GLY A 175 1 14 HELIX 6 AA6 GLY A 175 GLN A 180 1 6 HELIX 7 AA7 THR A 225 THR A 228 5 4 HELIX 8 AA8 GLN A 253 GLN A 255 5 3 HELIX 9 AA9 ALA D 49 GLU D 53 5 5 HELIX 10 AB1 GLY D 56 TYR D 85 1 30 HELIX 11 AB2 ASP D 137 ALA D 150 1 14 HELIX 12 AB3 HIS D 151 GLY D 162 1 12 HELIX 13 AB4 GLY D 162 GLY D 175 1 14 HELIX 14 AB5 GLY D 175 GLN D 180 1 6 HELIX 15 AB6 THR D 225 THR D 228 5 4 HELIX 16 AB7 GLN D 253 GLN D 255 5 3 SHEET 1 AA1 8 GLU A 46 PRO A 47 0 SHEET 2 AA1 8 THR A 31 ASP A 37 -1 N ARG A 35 O GLU A 46 SHEET 3 AA1 8 ARG A 21 VAL A 28 -1 N GLY A 26 O PHE A 33 SHEET 4 AA1 8 HIS A 3 VAL A 12 -1 N PHE A 8 O VAL A 25 SHEET 5 AA1 8 THR A 94 VAL A 103 -1 O ARG A 97 N PHE A 9 SHEET 6 AA1 8 PHE A 109 TYR A 118 -1 O GLN A 115 N MET A 98 SHEET 7 AA1 8 LYS A 121 LEU A 126 -1 O ILE A 124 N TYR A 116 SHEET 8 AA1 8 TRP A 133 ALA A 135 -1 O THR A 134 N ALA A 125 SHEET 1 AA2 4 LYS A 186 ALA A 193 0 SHEET 2 AA2 4 GLU A 198 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 AA2 4 PHE A 241 PRO A 250 -1 O ALA A 245 N CYS A 203 SHEET 4 AA2 4 GLU A 229 LEU A 230 -1 N GLU A 229 O ALA A 246 SHEET 1 AA3 4 LYS A 186 ALA A 193 0 SHEET 2 AA3 4 GLU A 198 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 AA3 4 PHE A 241 PRO A 250 -1 O ALA A 245 N CYS A 203 SHEET 4 AA3 4 ARG A 234 PRO A 235 -1 N ARG A 234 O GLN A 242 SHEET 1 AA4 4 GLU A 222 ASP A 223 0 SHEET 2 AA4 4 THR A 214 ARG A 219 -1 N ARG A 219 O GLU A 222 SHEET 3 AA4 4 TYR A 257 GLN A 262 -1 O HIS A 260 N THR A 216 SHEET 4 AA4 4 LEU A 270 LEU A 272 -1 O LEU A 272 N CYS A 259 SHEET 1 AA5 4 LYS B 6 SER B 11 0 SHEET 2 AA5 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 AA5 4 PHE B 62 PHE B 70 -1 O PHE B 70 N ASN B 21 SHEET 4 AA5 4 GLU B 50 HIS B 51 -1 N GLU B 50 O TYR B 67 SHEET 1 AA6 4 LYS B 6 SER B 11 0 SHEET 2 AA6 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 AA6 4 PHE B 62 PHE B 70 -1 O PHE B 70 N ASN B 21 SHEET 4 AA6 4 SER B 55 PHE B 56 -1 N SER B 55 O TYR B 63 SHEET 1 AA7 4 GLU B 44 ARG B 45 0 SHEET 2 AA7 4 GLU B 36 LYS B 41 -1 N LYS B 41 O GLU B 44 SHEET 3 AA7 4 TYR B 78 ASN B 83 -1 O ALA B 79 N LEU B 40 SHEET 4 AA7 4 LYS B 91 LYS B 94 -1 O LYS B 91 N VAL B 82 SHEET 1 AA8 8 GLU D 46 PRO D 47 0 SHEET 2 AA8 8 THR D 31 ASP D 37 -1 N ARG D 35 O GLU D 46 SHEET 3 AA8 8 ARG D 21 VAL D 28 -1 N VAL D 28 O THR D 31 SHEET 4 AA8 8 HIS D 3 VAL D 12 -1 N ARG D 6 O TYR D 27 SHEET 5 AA8 8 THR D 94 VAL D 103 -1 O ARG D 97 N PHE D 9 SHEET 6 AA8 8 PHE D 109 TYR D 118 -1 O GLN D 115 N MET D 98 SHEET 7 AA8 8 LYS D 121 LEU D 126 -1 O ILE D 124 N TYR D 116 SHEET 8 AA8 8 TRP D 133 ALA D 135 -1 O THR D 134 N ALA D 125 SHEET 1 AA9 4 LYS D 186 ALA D 193 0 SHEET 2 AA9 4 GLU D 198 PHE D 208 -1 O THR D 200 N HIS D 192 SHEET 3 AA9 4 PHE D 241 PRO D 250 -1 O ALA D 245 N CYS D 203 SHEET 4 AA9 4 GLU D 229 LEU D 230 -1 N GLU D 229 O ALA D 246 SHEET 1 AB1 4 LYS D 186 ALA D 193 0 SHEET 2 AB1 4 GLU D 198 PHE D 208 -1 O THR D 200 N HIS D 192 SHEET 3 AB1 4 PHE D 241 PRO D 250 -1 O ALA D 245 N CYS D 203 SHEET 4 AB1 4 ARG D 234 PRO D 235 -1 N ARG D 234 O GLN D 242 SHEET 1 AB2 4 GLU D 222 ASP D 223 0 SHEET 2 AB2 4 THR D 214 ARG D 219 -1 N ARG D 219 O GLU D 222 SHEET 3 AB2 4 TYR D 257 GLN D 262 -1 O HIS D 260 N THR D 216 SHEET 4 AB2 4 LEU D 270 LEU D 272 -1 O LEU D 272 N CYS D 259 SHEET 1 AB3 4 LYS E 6 SER E 11 0 SHEET 2 AB3 4 ASN E 21 PHE E 30 -1 O ASN E 24 N TYR E 10 SHEET 3 AB3 4 PHE E 62 PHE E 70 -1 O PHE E 70 N ASN E 21 SHEET 4 AB3 4 GLU E 50 HIS E 51 -1 N GLU E 50 O TYR E 67 SHEET 1 AB4 4 LYS E 6 SER E 11 0 SHEET 2 AB4 4 ASN E 21 PHE E 30 -1 O ASN E 24 N TYR E 10 SHEET 3 AB4 4 PHE E 62 PHE E 70 -1 O PHE E 70 N ASN E 21 SHEET 4 AB4 4 SER E 55 PHE E 56 -1 N SER E 55 O TYR E 63 SHEET 1 AB5 4 GLU E 44 ARG E 45 0 SHEET 2 AB5 4 GLU E 36 LYS E 41 -1 N LYS E 41 O GLU E 44 SHEET 3 AB5 4 TYR E 78 ASN E 83 -1 O ALA E 79 N LEU E 40 SHEET 4 AB5 4 LYS E 91 LYS E 94 -1 O LYS E 91 N VAL E 82 SSBOND 1 CYS A 101 CYS A 164 1555 1555 2.02 SSBOND 2 CYS A 203 CYS A 259 1555 1555 2.02 SSBOND 3 CYS B 25 CYS B 80 1555 1555 2.02 SSBOND 4 CYS D 101 CYS D 164 1555 1555 2.02 SSBOND 5 CYS D 203 CYS D 259 1555 1555 2.02 SSBOND 6 CYS E 25 CYS E 80 1555 1555 2.03 LINK CB ALA D 139 O3S MES D 301 1555 1455 1.37 CISPEP 1 TYR A 209 PRO A 210 0 2.27 CISPEP 2 HIS B 31 PRO B 32 0 0.15 CISPEP 3 TYR D 209 PRO D 210 0 1.21 CISPEP 4 HIS E 31 PRO E 32 0 -0.59 CRYST1 58.196 85.432 84.075 90.00 90.01 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 0.017183 0.000000 0.000003 0.00000 SCALE2 0.000000 0.011705 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011894 0.00000