HEADER IMMUNE SYSTEM 02-SEP-16 5T6Z TITLE KIR3DL1 IN COMPLEX WITH HLA-B*57:01-TW10 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HLA CLASS I HISTOCOMPATIBILITY ANTIGEN, B-57 ALPHA CHAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 25-300; COMPND 5 SYNONYM: BW-57,MHC CLASS I ANTIGEN B*57; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: UNP RESIDUES 21-119; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DECAPEPTIDE: THR-SER-THR-LEU-GLN-GLU-GLN-ILE-GLY-TRP; COMPND 14 CHAIN: C; COMPND 15 ENGINEERED: YES; COMPND 16 MOL_ID: 4; COMPND 17 MOLECULE: KILLER CELL IMMUNOGLOBULIN-LIKE RECEPTOR 3DL1; COMPND 18 CHAIN: G; COMPND 19 FRAGMENT: UNP RESIDUES 22-320; COMPND 20 SYNONYM: CD158 ANTIGEN-LIKE FAMILY MEMBER E,HLA-BW4-SPECIFIC COMPND 21 INHIBITORY NK CELL RECEPTOR,MHC CLASS I NK CELL RECEPTOR,NATURAL COMPND 22 KILLER-ASSOCIATED TRANSCRIPT 3,NKAT-3,P70 NATURAL KILLER CELL COMPND 23 RECEPTOR CLONES CL-2/CL-11,P70 NK RECEPTOR CL-2/CL-11; COMPND 24 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-B, HLAB; 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 EXPRESSION_SYSTEM_PLASMID: PET-30; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: B2M, CDABP0092, HDCMA22P; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PET-30; SOURCE 21 MOL_ID: 3; SOURCE 22 SYNTHETIC: YES; SOURCE 23 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 24 ORGANISM_TAXID: 32630; SOURCE 25 MOL_ID: 4; SOURCE 26 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 27 ORGANISM_COMMON: HUMAN; SOURCE 28 ORGANISM_TAXID: 9606; SOURCE 29 GENE: KIR3DL1, CD158E, NKAT3, NKB1; SOURCE 30 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 31 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 32 EXPRESSION_SYSTEM_CELL_LINE: HEK 293S; SOURCE 33 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 34 EXPRESSION_SYSTEM_PLASMID: PHLSEC KEYWDS HUMAN LEUKOCYTE ANTIGEN IMMUNOGLOBULIN DOMAIN ANTIGEN PRESENTATION, KEYWDS 2 IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR P.PYMM,J.ROSSJOHN,J.P.VIVIAN REVDAT 5 04-OCT-23 5T6Z 1 HETSYN REVDAT 4 29-JUL-20 5T6Z 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE REVDAT 3 09-AUG-17 5T6Z 1 REMARK REVDAT 2 19-APR-17 5T6Z 1 JRNL REVDAT 1 01-MAR-17 5T6Z 0 JRNL AUTH P.PYMM,P.T.ILLING,S.H.RAMARATHINAM,G.M.O'CONNOR,V.A.HUGHES, JRNL AUTH 2 C.HITCHEN,D.A.PRICE,B.K.HO,D.W.MCVICAR,A.G.BROOKS, JRNL AUTH 3 A.W.PURCELL,J.ROSSJOHN,J.P.VIVIAN JRNL TITL MHC-I PEPTIDES GET OUT OF THE GROOVE AND ENABLE A NOVEL JRNL TITL 2 MECHANISM OF HIV-1 ESCAPE. JRNL REF NAT. STRUCT. MOL. BIOL. V. 24 387 2017 JRNL REFN ESSN 1545-9985 JRNL PMID 28218747 JRNL DOI 10.1038/NSMB.3381 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7.2_869 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.87 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.970 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.0 REMARK 3 NUMBER OF REFLECTIONS : 47284 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 2393 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 39.8747 - 5.1391 0.92 2577 140 0.1925 0.2118 REMARK 3 2 5.1391 - 4.0804 0.95 2652 146 0.1450 0.1874 REMARK 3 3 4.0804 - 3.5650 0.95 2684 147 0.1654 0.1723 REMARK 3 4 3.5650 - 3.2392 0.95 2650 138 0.1784 0.1843 REMARK 3 5 3.2392 - 3.0071 0.95 2676 156 0.1916 0.2322 REMARK 3 6 3.0071 - 2.8298 0.95 2649 159 0.2040 0.2566 REMARK 3 7 2.8298 - 2.6882 0.95 2680 120 0.2065 0.2318 REMARK 3 8 2.6882 - 2.5712 0.95 2699 135 0.2209 0.3121 REMARK 3 9 2.5712 - 2.4722 0.95 2629 147 0.2079 0.2657 REMARK 3 10 2.4722 - 2.3869 0.95 2682 144 0.2043 0.2620 REMARK 3 11 2.3869 - 2.3123 0.95 2668 139 0.2190 0.2590 REMARK 3 12 2.3123 - 2.2462 0.90 2502 127 0.3483 0.3794 REMARK 3 13 2.2462 - 2.1871 0.90 2543 117 0.3985 0.5002 REMARK 3 14 2.1871 - 2.1337 0.94 2669 145 0.2200 0.2742 REMARK 3 15 2.1337 - 2.0852 0.95 2649 145 0.1995 0.2605 REMARK 3 16 2.0852 - 2.0408 0.94 2622 144 0.1934 0.2282 REMARK 3 17 2.0408 - 2.0000 0.94 2660 144 0.2051 0.2679 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.73 REMARK 3 K_SOL : 0.37 REMARK 3 B_SOL : 40.55 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.570 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.690 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) : -0.44790 REMARK 3 B22 (A**2) : 0.59830 REMARK 3 B33 (A**2) : -0.15040 REMARK 3 B12 (A**2) : -4.78160 REMARK 3 B13 (A**2) : -4.12050 REMARK 3 B23 (A**2) : 4.37410 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 : 0.005 5567 REMARK 3 ANGLE : 1.142 7554 REMARK 3 CHIRALITY : 0.079 785 REMARK 3 PLANARITY : 0.005 987 REMARK 3 DIHEDRAL : 13.644 2053 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 5T6Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1000223830. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAY-11 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 : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.954 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47511 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 39.867 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.08200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.2 REMARK 200 DATA REDUNDANCY IN SHELL : 4.90 REMARK 200 R MERGE FOR SHELL (I) : 0.21800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 11.20 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: 3VH8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG 3350, 2% TACSIMATE PH 5.0 AND REMARK 280 0.1M TRI-SODIUM CITRATE PH 5.6, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, G 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 PRO A 276 REMARK 465 HIS G 1 REMARK 465 MET G 2 REMARK 465 GLY G 3 REMARK 465 GLY G 4 REMARK 465 GLN G 5 REMARK 465 ASP G 6 REMARK 465 GLY G 262 REMARK 465 PRO G 263 REMARK 465 ALA G 264 REMARK 465 THR G 265 REMARK 465 HIS G 266 REMARK 465 THR G 295 REMARK 465 GLY G 296 REMARK 465 ASN G 297 REMARK 465 PRO G 298 REMARK 465 SER G 299 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 G 552 O HOH G 558 1.75 REMARK 500 OE1 GLU G 242 O HOH G 401 1.81 REMARK 500 O SER G 77 O HOH G 402 1.81 REMARK 500 O HOH B 114 O HOH B 135 1.81 REMARK 500 O HOH C 110 O HOH C 112 1.84 REMARK 500 O HOH A 576 O HOH B 190 1.87 REMARK 500 O HOH G 429 O HOH G 613 1.87 REMARK 500 O HOH A 536 O HOH A 560 1.88 REMARK 500 O HOH G 566 O HOH G 606 1.90 REMARK 500 O HOH A 551 O HOH A 580 1.90 REMARK 500 O HOH G 615 O HOH G 634 1.91 REMARK 500 O LEU B 87 O HOH B 101 1.93 REMARK 500 O HOH A 511 O HOH A 577 1.94 REMARK 500 O HOH G 510 O HOH G 637 1.95 REMARK 500 O HOH G 405 O HOH G 415 1.95 REMARK 500 O ALA A 40 O HOH A 301 1.98 REMARK 500 ND2 ASN G 158 O HOH G 403 1.98 REMARK 500 ND2 ASN G 36 O HOH G 404 2.00 REMARK 500 O HOH B 104 O HOH B 172 2.01 REMARK 500 O HOH A 431 O HOH A 511 2.01 REMARK 500 O GLU A 275 O HOH A 302 2.02 REMARK 500 O PHE G 34 O HOH G 405 2.03 REMARK 500 O HOH A 439 O HOH A 519 2.03 REMARK 500 OE1 GLU A 55 O HOH A 303 2.04 REMARK 500 NH1 ARG G 249 O HOH G 406 2.05 REMARK 500 O HOH A 493 O HOH A 543 2.05 REMARK 500 NH1 ARG G 118 O HOH G 407 2.07 REMARK 500 NH1 ARG G 249 O HOH G 408 2.08 REMARK 500 O ARG G 44 O HOH G 409 2.10 REMARK 500 OG SER G 140 O HOH G 410 2.10 REMARK 500 O HOH G 606 O HOH G 640 2.11 REMARK 500 O HOH G 497 O HOH G 625 2.11 REMARK 500 ND1 HIS A 260 O HOH A 304 2.11 REMARK 500 OD2 ASP A 227 O HOH A 305 2.11 REMARK 500 O HOH B 159 O HOH B 189 2.13 REMARK 500 O HOH A 359 O HOH A 568 2.13 REMARK 500 O HOH A 576 O HOH A 577 2.14 REMARK 500 O HOH B 153 O HOH B 160 2.14 REMARK 500 OE1 GLU A 154 O HOH A 306 2.14 REMARK 500 O HOH G 620 O HOH G 639 2.15 REMARK 500 OD1 ASP A 29 O HOH A 307 2.16 REMARK 500 O HOH A 402 O HOH A 534 2.17 REMARK 500 O HOH A 466 O HOH A 538 2.17 REMARK 500 N SER A 42 O HOH A 308 2.17 REMARK 500 O HOH A 406 O HOH A 539 2.18 REMARK 500 OE1 GLU B 36 O HOH B 102 2.19 REMARK 500 O SER G 218 O HOH G 411 2.19 REMARK 500 REMARK 500 REMARK: NULL 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 O HOH B 129 O HOH G 625 1656 2.16 REMARK 500 O HOH A 554 O HOH C 118 1556 2.16 REMARK 500 O HOH A 533 O HOH G 574 1445 2.17 REMARK 500 NH2 ARG A 256 O GLY G 238 1546 2.18 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 GLU A 63 CD GLU A 63 OE2 -0.068 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 ARG A 14 65.17 -156.17 REMARK 500 ASP A 29 -121.81 47.37 REMARK 500 GLN A 224 40.81 -98.25 REMARK 500 PRO B 32 -168.54 -75.42 REMARK 500 TRP B 60 -0.61 79.06 REMARK 500 ASN G 36 77.05 52.04 REMARK 500 SER G 62 123.16 -170.99 REMARK 500 HIS G 151 115.68 -166.96 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 G 646 DISTANCE = 6.08 ANGSTROMS REMARK 525 HOH G 647 DISTANCE = 6.41 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5T6W RELATED DB: PDB REMARK 900 RELATED ID: 5T6X RELATED DB: PDB REMARK 900 RELATED ID: 5T6Y RELATED DB: PDB REMARK 900 RELATED ID: 5T70 RELATED DB: PDB DBREF 5T6Z A 1 276 UNP P18465 1B57_HUMAN 25 300 DBREF 5T6Z B 1 99 UNP P61769 B2MG_HUMAN 21 119 DBREF 5T6Z C 1 10 PDB 5T6Z 5T6Z 1 10 DBREF 5T6Z G 1 299 UNP P43629 KI3L1_HUMAN 22 320 SEQRES 1 A 276 GLY SER HIS SER MET ARG TYR PHE TYR THR ALA MET SER SEQRES 2 A 276 ARG PRO GLY ARG GLY GLU PRO ARG PHE ILE ALA VAL GLY SEQRES 3 A 276 TYR VAL ASP ASP THR GLN PHE VAL ARG PHE ASP SER ASP SEQRES 4 A 276 ALA ALA SER PRO ARG MET ALA PRO ARG ALA PRO TRP ILE SEQRES 5 A 276 GLU GLN GLU GLY PRO GLU TYR TRP ASP GLY GLU THR ARG SEQRES 6 A 276 ASN MET LYS ALA SER ALA GLN THR TYR ARG GLU ASN LEU SEQRES 7 A 276 ARG ILE ALA LEU ARG TYR TYR ASN GLN SER GLU ALA GLY SEQRES 8 A 276 SER HIS ILE ILE GLN VAL MET TYR GLY CYS ASP VAL GLY SEQRES 9 A 276 PRO ASP GLY ARG LEU LEU ARG GLY HIS ASP GLN SER ALA SEQRES 10 A 276 TYR ASP GLY LYS ASP TYR ILE ALA LEU ASN GLU ASP LEU SEQRES 11 A 276 SER SER TRP THR ALA ALA ASP THR ALA ALA GLN ILE THR SEQRES 12 A 276 GLN ARG LYS TRP GLU ALA ALA ARG VAL ALA GLU GLN LEU SEQRES 13 A 276 ARG ALA TYR LEU GLU GLY LEU CYS VAL GLU TRP LEU ARG SEQRES 14 A 276 ARG TYR LEU GLU ASN GLY LYS GLU THR LEU GLN ARG ALA SEQRES 15 A 276 ASP PRO PRO LYS THR HIS VAL THR HIS HIS PRO ILE SER SEQRES 16 A 276 ASP HIS GLU ALA THR LEU ARG CYS TRP ALA LEU GLY PHE SEQRES 17 A 276 TYR PRO ALA GLU ILE THR LEU THR TRP GLN ARG ASP GLY SEQRES 18 A 276 GLU ASP GLN THR GLN ASP THR GLU LEU VAL GLU THR ARG SEQRES 19 A 276 PRO ALA GLY ASP ARG THR PHE GLN LYS TRP ALA ALA VAL SEQRES 20 A 276 VAL VAL PRO SER GLY GLU GLU GLN ARG TYR THR CYS HIS SEQRES 21 A 276 VAL GLN HIS GLU GLY LEU PRO LYS PRO LEU THR LEU ARG SEQRES 22 A 276 TRP GLU PRO SEQRES 1 B 99 ILE GLN ARG THR PRO LYS ILE GLN VAL TYR SER ARG HIS SEQRES 2 B 99 PRO ALA GLU ASN GLY LYS SER ASN PHE LEU ASN CYS TYR SEQRES 3 B 99 VAL SER GLY PHE HIS PRO SER ASP ILE GLU VAL ASP LEU SEQRES 4 B 99 LEU LYS ASN GLY GLU ARG ILE GLU LYS VAL GLU HIS SER SEQRES 5 B 99 ASP LEU SER PHE SER LYS ASP TRP SER PHE TYR LEU LEU SEQRES 6 B 99 TYR TYR THR GLU PHE THR PRO THR GLU LYS ASP GLU TYR SEQRES 7 B 99 ALA CYS ARG VAL ASN HIS VAL THR LEU SER GLN PRO LYS SEQRES 8 B 99 ILE VAL LYS TRP ASP ARG ASP MET SEQRES 1 C 10 THR SER THR LEU GLN GLU GLN ILE GLY TRP SEQRES 1 G 299 HIS MET GLY GLY GLN ASP LYS PRO PHE LEU SER ALA TRP SEQRES 2 G 299 PRO SER ALA VAL VAL PRO ARG GLY GLY HIS VAL THR LEU SEQRES 3 G 299 ARG CYS HIS TYR ARG HIS ARG PHE ASN ASN PHE MET LEU SEQRES 4 G 299 TYR LYS GLU ASP ARG ILE HIS ILE PRO ILE PHE HIS GLY SEQRES 5 G 299 ARG ILE PHE GLN GLU SER PHE ASN MET SER PRO VAL THR SEQRES 6 G 299 THR ALA HIS ALA GLY ASN TYR THR CYS ARG GLY SER HIS SEQRES 7 G 299 PRO HIS SER PRO THR GLY TRP SER ALA PRO SER ASN PRO SEQRES 8 G 299 VAL VAL ILE MET VAL THR GLY ASN HIS ARG LYS PRO SER SEQRES 9 G 299 LEU LEU ALA HIS PRO GLY PRO LEU VAL LYS SER GLY GLU SEQRES 10 G 299 ARG VAL ILE LEU GLN CYS TRP SER ASP ILE MET PHE GLU SEQRES 11 G 299 HIS PHE PHE LEU HIS LYS GLU GLY ILE SER LYS ASP PRO SEQRES 12 G 299 SER ARG LEU VAL GLY GLN ILE HIS ASP GLY VAL SER LYS SEQRES 13 G 299 ALA ASN PHE SER ILE GLY PRO MET MET LEU ALA LEU ALA SEQRES 14 G 299 GLY THR TYR ARG CYS TYR GLY SER VAL THR HIS THR PRO SEQRES 15 G 299 TYR GLN LEU SER ALA PRO SER ASP PRO LEU ASP ILE VAL SEQRES 16 G 299 VAL THR GLY PRO TYR GLU LYS PRO SER LEU SER ALA GLN SEQRES 17 G 299 PRO GLY PRO LYS VAL GLN ALA GLY GLU SER VAL THR LEU SEQRES 18 G 299 SER CYS SER SER ARG SER SER TYR ASP MET TYR HIS LEU SEQRES 19 G 299 SER ARG GLU GLY GLY ALA HIS GLU ARG ARG LEU PRO ALA SEQRES 20 G 299 VAL ARG LYS VAL ASN ARG THR PHE GLN ALA ASP PHE PRO SEQRES 21 G 299 LEU GLY PRO ALA THR HIS GLY GLY THR TYR ARG CYS PHE SEQRES 22 G 299 GLY SER PHE ARG HIS SER PRO TYR GLU TRP SER ASP PRO SEQRES 23 G 299 SER ASP PRO LEU LEU VAL SER VAL THR GLY ASN PRO SER HET NAG G 300 14 HET NAG G 301 14 HET NAG G 302 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 5 NAG 3(C8 H15 N O6) FORMUL 8 HOH *651(H2 O) HELIX 1 AA1 ALA A 49 GLU A 53 5 5 HELIX 2 AA2 GLY A 56 ASN A 86 1 31 HELIX 3 AA3 ASP A 137 ALA A 150 1 14 HELIX 4 AA4 ARG 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 GLU A 253 GLN A 255 5 3 HELIX 8 AA8 PRO G 48 ARG G 53 1 6 HELIX 9 AA9 THR G 65 ALA G 69 5 5 HELIX 10 AB1 MET G 165 ALA G 169 5 5 SHEET 1 AA1 8 ALA A 46 PRO A 47 0 SHEET 2 AA1 8 THR A 31 ASP A 37 -1 N ARG A 35 O ALA 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 MET A 12 -1 N ARG A 6 O TYR A 27 SHEET 5 AA1 8 ILE A 94 VAL A 103 -1 O VAL A 97 N TYR A 9 SHEET 6 AA1 8 LEU A 109 TYR A 118 -1 O LEU A 110 N ASP A 102 SHEET 7 AA1 8 LYS A 121 LEU A 126 -1 O LEU A 126 N ASP A 114 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 PRO 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 VAL A 249 N ALA A 199 SHEET 4 AA2 4 THR A 228 LEU A 230 -1 N GLU A 229 O ALA A 246 SHEET 1 AA3 4 LYS A 186 PRO 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 VAL A 249 N ALA A 199 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 SER B 28 N LYS B 6 SHEET 3 AA5 4 PHE B 62 PHE B 70 -1 O THR B 68 N LEU B 23 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 SER B 28 N LYS B 6 SHEET 3 AA6 4 PHE B 62 PHE B 70 -1 O THR B 68 N LEU B 23 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 ARG B 81 N ASP B 38 SHEET 4 AA7 4 LYS B 91 LYS B 94 -1 O LYS B 91 N VAL B 82 SHEET 1 AA8 3 PHE G 9 TRP G 13 0 SHEET 2 AA8 3 VAL G 24 HIS G 29 -1 O HIS G 29 N PHE G 9 SHEET 3 AA8 3 PHE G 59 MET G 61 -1 O MET G 61 N VAL G 24 SHEET 1 AA9 4 VAL G 17 PRO G 19 0 SHEET 2 AA9 4 VAL G 92 THR G 97 1 O MET G 95 N VAL G 18 SHEET 3 AA9 4 GLY G 70 GLY G 76 -1 N TYR G 72 O VAL G 92 SHEET 4 AA9 4 PHE G 37 LYS G 41 -1 N MET G 38 O ARG G 75 SHEET 1 AB1 4 SER G 104 HIS G 108 0 SHEET 2 AB1 4 VAL G 119 SER G 125 -1 O TRP G 124 N SER G 104 SHEET 3 AB1 4 VAL G 154 ILE G 161 -1 O PHE G 159 N LEU G 121 SHEET 4 AB1 4 GLN G 149 HIS G 151 -1 N GLN G 149 O LYS G 156 SHEET 1 AB2 5 LEU G 112 LYS G 114 0 SHEET 2 AB2 5 LEU G 192 THR G 197 1 O VAL G 195 N VAL G 113 SHEET 3 AB2 5 GLY G 170 SER G 177 -1 N GLY G 170 O ILE G 194 SHEET 4 AB2 5 HIS G 131 LYS G 136 -1 N PHE G 133 O TYR G 175 SHEET 5 AB2 5 SER G 144 VAL G 147 -1 O LEU G 146 N PHE G 132 SHEET 1 AB3 3 LEU G 112 LYS G 114 0 SHEET 2 AB3 3 LEU G 192 THR G 197 1 O VAL G 195 N VAL G 113 SHEET 3 AB3 3 GLU G 282 TRP G 283 1 O TRP G 283 N VAL G 196 SHEET 1 AB4 4 SER G 204 GLN G 208 0 SHEET 2 AB4 4 THR G 220 SER G 225 -1 O SER G 224 N SER G 204 SHEET 3 AB4 4 PHE G 255 PRO G 260 -1 O PHE G 259 N LEU G 221 SHEET 4 AB4 4 VAL G 248 ARG G 249 -1 N VAL G 248 O GLN G 256 SHEET 1 AB5 4 ALA G 240 PRO G 246 0 SHEET 2 AB5 4 MET G 231 ARG G 236 -1 N TYR G 232 O LEU G 245 SHEET 3 AB5 4 GLY G 268 SER G 275 -1 O ARG G 271 N SER G 235 SHEET 4 AB5 4 LEU G 290 VAL G 292 -1 O LEU G 290 N TYR G 270 SSBOND 1 CYS A 101 CYS A 164 1555 1555 2.05 SSBOND 2 CYS A 203 CYS A 259 1555 1555 2.02 SSBOND 3 CYS B 25 CYS B 80 1555 1555 2.03 SSBOND 4 CYS G 28 CYS G 74 1555 1555 2.04 SSBOND 5 CYS G 123 CYS G 174 1555 1555 2.04 SSBOND 6 CYS G 223 CYS G 272 1555 1555 1.83 LINK ND2 ASN G 71 C1 NAG G 300 1555 1555 1.88 LINK ND2 ASN G 158 C1 NAG G 301 1555 1555 1.85 LINK ND2 ASN G 252 C1 NAG G 302 1555 1555 1.81 CISPEP 1 TYR A 209 PRO A 210 0 4.43 CISPEP 2 HIS B 31 PRO B 32 0 2.44 CISPEP 3 TRP G 13 PRO G 14 0 0.84 CISPEP 4 SER G 62 PRO G 63 0 -2.76 CISPEP 5 HIS G 108 PRO G 109 0 3.01 CISPEP 6 GLY G 162 PRO G 163 0 -1.62 CISPEP 7 GLY G 198 PRO G 199 0 7.32 CISPEP 8 GLN G 208 PRO G 209 0 6.02 CISPEP 9 ALA G 215 GLY G 216 0 3.35 CRYST1 51.812 61.382 65.359 95.31 98.02 109.23 P 1 1 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 0.019301 0.006733 0.003756 0.00000 SCALE2 0.000000 0.017254 0.002583 0.00000 SCALE3 0.000000 0.000000 0.015623 0.00000