HEADER IMMUNE SYSTEM 12-OCT-11 3VJ6 TITLE STRUCTURE OF THE MHC CLASS IB MOLECULE QA-1B COMPND MOL_ID: 1; COMPND 2 MOLECULE: H-2 CLASS I HISTOCOMPATIBILITY ANTIGEN, D-37 ALPHA CHAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: QA-1B EXTRACELLULAR DOMAIN, UNP RESIDUES 21-297; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: QDM PEPTIDE; COMPND 12 CHAIN: P; COMPND 13 ENGINEERED: YES; COMPND 14 OTHER_DETAILS: PEPTIDE FROM MHC-CLASSIA LEADER SEQUENCE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: H2-T23; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; 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: MUS MUSCULUS; SOURCE 13 ORGANISM_COMMON: MOUSE; SOURCE 14 ORGANISM_TAXID: 10090; SOURCE 15 GENE: B2M; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; 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: MUS MUSCULUS; SOURCE 24 ORGANISM_COMMON: MOUSE; SOURCE 25 ORGANISM_TAXID: 10090; SOURCE 26 OTHER_DETAILS: SYNTHESISED PEPTIDE FROM MHC-CLASSIA LEADER SEQUENCE KEYWDS MHC-CLASSIB, IMMUNOGLOBULIN FOLD, IMMUNE SYSTEM, PEPTIDE KEYWDS 2 PRESENTATION, CD94-NKG2A/C RECEPTORS EXPDTA X-RAY DIFFRACTION AUTHOR L.ZENG,C.S.CLEMENTS,J.ROSSJOHN REVDAT 2 08-NOV-23 3VJ6 1 REMARK SEQADV LINK REVDAT 1 14-MAR-12 3VJ6 0 JRNL AUTH L.ZENG,L.C.SULLIVAN,J.P.VIVIAN,N.G.WALPOLE,C.M.HARPUR, JRNL AUTH 2 J.ROSSJOHN,C.S.CLEMENTS,A.G.BROOKS JRNL TITL A STRUCTURAL BASIS FOR ANTIGEN PRESENTATION BY THE MHC CLASS JRNL TITL 2 IB MOLECULE, QA-1B JRNL REF J.IMMUNOL. V. 188 302 2012 JRNL REFN ISSN 0022-1767 JRNL PMID 22131332 JRNL DOI 10.4049/JIMMUNOL.1102379 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.6.4_486) 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.45 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 33533 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 1701 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 41.4592 - 4.0828 1.00 3375 173 0.1958 0.1994 REMARK 3 2 4.0828 - 3.2410 1.00 3242 167 0.1738 0.2048 REMARK 3 3 3.2410 - 2.8315 1.00 3195 173 0.1949 0.2496 REMARK 3 4 2.8315 - 2.5726 1.00 3199 164 0.2074 0.2877 REMARK 3 5 2.5726 - 2.3882 1.00 3144 188 0.2094 0.2672 REMARK 3 6 2.3882 - 2.2474 1.00 3161 167 0.2087 0.2802 REMARK 3 7 2.2474 - 2.1349 1.00 3125 176 0.2063 0.2774 REMARK 3 8 2.1349 - 2.0420 1.00 3133 173 0.2218 0.2777 REMARK 3 9 2.0420 - 1.9634 1.00 3158 162 0.2315 0.3322 REMARK 3 10 1.9634 - 1.8956 0.98 3100 158 0.2912 0.3066 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 : 0.41 REMARK 3 B_SOL : 58.89 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.640 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.03 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.11770 REMARK 3 B22 (A**2) : 0.24880 REMARK 3 B33 (A**2) : -0.13110 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 : 0.006 3283 REMARK 3 ANGLE : 1.083 4465 REMARK 3 CHIRALITY : 0.077 457 REMARK 3 PLANARITY : 0.005 588 REMARK 3 DIHEDRAL : 14.968 1226 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 3VJ6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 21-OCT-11. REMARK 100 THE DEPOSITION ID IS D_1000095110. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33622 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 42.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : 0.07800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 31.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.96 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.58000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.200 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: PDB ENTRY 2ESV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6% PEG 4000, 10MM NICL2, 0.1M SODIUM REMARK 280 ACETATE, PH 6.3. , VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K 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 29.63400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 47.92200 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.41650 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 47.92200 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.63400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.41650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, P 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 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 451 O HOH B 227 1.87 REMARK 500 O HOH B 126 O HOH B 133 1.95 REMARK 500 O HOH A 329 O HOH A 388 2.03 REMARK 500 OE2 GLU A 19 NH1 ARG A 75 2.08 REMARK 500 NE ARG A 131 O HOH A 470 2.15 REMARK 500 OE1 GLN A 115 O HOH A 429 2.16 REMARK 500 O GLN A 161 O HOH A 433 2.17 REMARK 500 ND2 ASN A 176 OE1 GLN A 180 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 OD2 ASP A 197 O HOH B 134 3655 1.98 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 PRO A 15 C - N - CD ANGL. DEV. = -13.1 DEGREES 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 -124.51 49.35 REMARK 500 CYS A 114 97.14 -163.20 REMARK 500 SER B 55 -155.97 -159.42 REMARK 500 TRP B 60 -6.88 77.92 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 278 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 260 NE2 REMARK 620 2 HOH A 383 O 173.4 REMARK 620 3 HOH A 384 O 97.7 87.5 REMARK 620 4 HOH A 457 O 86.6 87.9 173.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 279 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 397 O REMARK 620 2 HOH B 178 O 59.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 100 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 34 NE2 REMARK 620 2 HOH B 134 O 70.7 REMARK 620 3 HOH B 184 O 80.3 53.3 REMARK 620 4 HOH B 245 O 100.6 157.7 105.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 101 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 67 NE2 REMARK 620 2 HOH B 135 O 80.1 REMARK 620 3 HOH B 239 O 99.3 70.2 REMARK 620 4 HOH B 255 O 157.9 117.4 76.3 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 278 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 279 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 100 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 101 DBREF 3VJ6 A 1 277 UNP P06339 HA15_MOUSE 21 297 DBREF 3VJ6 B 1 99 UNP P01887 B2MG_MOUSE 21 119 DBREF 3VJ6 P 1 9 UNP P01897 HA1L_MOUSE 3 11 SEQADV 3VJ6 MET B 0 UNP P01887 EXPRESSION TAG SEQRES 1 A 277 SER PRO HIS SER LEU ARG TYR PHE THR THR ALA VAL SER SEQRES 2 A 277 ARG PRO GLY LEU GLY GLU PRO ARG PHE ILE ILE VAL GLY SEQRES 3 A 277 TYR VAL ASP ASP THR GLN PHE VAL ARG PHE ASP SER ASP SEQRES 4 A 277 ALA GLU ASN PRO ARG MET GLU PRO ARG ALA ARG TRP ILE SEQRES 5 A 277 GLU GLN GLU GLY PRO GLU TYR TRP GLU ARG GLU THR TRP SEQRES 6 A 277 LYS ALA ARG ASP MET GLY ARG ASN PHE ARG VAL ASN LEU SEQRES 7 A 277 ARG THR LEU LEU GLY TYR TYR ASN GLN SER ASN ASP GLU SEQRES 8 A 277 SER HIS THR LEU GLN TRP MET TYR GLY CYS ASP VAL GLY SEQRES 9 A 277 PRO ASP GLY ARG LEU LEU ARG GLY TYR CYS GLN GLU ALA SEQRES 10 A 277 TYR ASP GLY GLN ASP TYR ILE SER LEU ASN GLU ASP LEU SEQRES 11 A 277 ARG SER TRP THR ALA ASN ASP ILE ALA SER GLN ILE SER SEQRES 12 A 277 LYS HIS LYS SER GLU ALA VAL ASP GLU ALA HIS GLN GLN SEQRES 13 A 277 ARG ALA TYR LEU GLN GLY PRO CYS VAL GLU TRP LEU HIS SEQRES 14 A 277 ARG TYR LEU ARG LEU GLY ASN GLU THR LEU GLN ARG SER SEQRES 15 A 277 ASP PRO PRO LYS ALA HIS VAL THR HIS HIS PRO ARG SER SEQRES 16 A 277 GLU ASP GLU VAL THR LEU ARG CYS TRP ALA LEU GLY PHE SEQRES 17 A 277 TYR PRO ALA ASP ILE THR LEU THR TRP GLN LEU ASN GLY SEQRES 18 A 277 GLU GLU LEU THR GLN ASP MET GLU LEU VAL GLU THR ARG SEQRES 19 A 277 PRO ALA GLY ASP GLY THR PHE GLN LYS TRP ALA ALA VAL SEQRES 20 A 277 VAL VAL PRO LEU GLY LYS GLU GLN TYR TYR THR CYS HIS SEQRES 21 A 277 VAL TYR HIS GLU GLY LEU PRO GLU PRO LEU THR LEU ARG SEQRES 22 A 277 TRP GLU PRO PRO SEQRES 1 B 100 MET ILE GLN LYS THR PRO GLN ILE GLN VAL TYR SER ARG SEQRES 2 B 100 HIS PRO PRO GLU ASN GLY LYS PRO ASN ILE LEU ASN CYS SEQRES 3 B 100 TYR VAL THR GLN PHE HIS PRO PRO HIS ILE GLU ILE GLN SEQRES 4 B 100 MET LEU LYS ASN GLY LYS LYS ILE PRO LYS VAL GLU MET SEQRES 5 B 100 SER ASP MET SER PHE SER LYS ASP TRP SER PHE TYR ILE SEQRES 6 B 100 LEU ALA HIS THR GLU PHE THR PRO THR GLU THR ASP THR SEQRES 7 B 100 TYR ALA CYS ARG VAL LYS HIS ASP SER MET ALA GLU PRO SEQRES 8 B 100 LYS THR VAL TYR TRP ASP ARG ASP MET SEQRES 1 P 9 ALA MET ALA PRO ARG THR LEU LEU LEU HET NI A 278 1 HET NI A 279 1 HET NI B 100 1 HET NI B 101 1 HETNAM NI NICKEL (II) ION FORMUL 4 NI 4(NI 2+) FORMUL 8 HOH *263(H2 O) HELIX 1 1 ALA A 49 GLU A 55 5 7 HELIX 2 2 GLY A 56 ASN A 86 1 31 HELIX 3 3 ASP A 137 VAL A 150 1 14 HELIX 4 4 ASP A 151 GLY A 162 1 12 HELIX 5 5 GLY A 162 GLY A 175 1 14 HELIX 6 6 GLY A 175 GLN A 180 1 6 HELIX 7 7 LYS A 253 GLN A 255 5 3 SHEET 1 A 8 GLU A 46 PRO A 47 0 SHEET 2 A 8 THR A 31 ASP A 37 -1 N ARG A 35 O GLU A 46 SHEET 3 A 8 ARG A 21 VAL A 28 -1 N ILE A 24 O PHE A 36 SHEET 4 A 8 HIS A 3 VAL A 12 -1 N PHE A 8 O VAL A 25 SHEET 5 A 8 THR A 94 VAL A 103 -1 O TRP A 97 N THR A 9 SHEET 6 A 8 LEU A 109 TYR A 118 -1 O LEU A 110 N ASP A 102 SHEET 7 A 8 GLN A 121 LEU A 126 -1 O ILE A 124 N GLU A 116 SHEET 8 A 8 TRP A 133 ALA A 135 -1 O THR A 134 N SER A 125 SHEET 1 B 4 LYS A 186 SER A 195 0 SHEET 2 B 4 GLU A 198 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 B 4 PHE A 241 PRO A 250 -1 O VAL A 249 N VAL A 199 SHEET 4 B 4 GLU A 229 LEU A 230 -1 N GLU A 229 O ALA A 246 SHEET 1 C 4 LYS A 186 SER A 195 0 SHEET 2 C 4 GLU A 198 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 C 4 PHE A 241 PRO A 250 -1 O VAL A 249 N VAL A 199 SHEET 4 C 4 ARG A 234 PRO A 235 -1 N ARG A 234 O GLN A 242 SHEET 1 D 3 THR A 214 LEU A 219 0 SHEET 2 D 3 TYR A 257 TYR A 262 -1 O TYR A 262 N THR A 214 SHEET 3 D 3 LEU A 270 LEU A 272 -1 O LEU A 272 N CYS A 259 SHEET 1 E 4 GLN B 6 SER B 11 0 SHEET 2 E 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 E 4 PHE B 62 PHE B 70 -1 O THR B 68 N LEU B 23 SHEET 4 E 4 GLU B 50 PHE B 56 -1 N SER B 52 O LEU B 65 SHEET 1 F 4 LYS B 44 LYS B 45 0 SHEET 2 F 4 GLU B 36 LYS B 41 -1 N LYS B 41 O LYS B 44 SHEET 3 F 4 TYR B 78 LYS B 83 -1 O ARG B 81 N GLN B 38 SHEET 4 F 4 LYS B 91 TYR B 94 -1 O VAL B 93 N CYS B 80 SSBOND 1 CYS A 101 CYS A 164 1555 1555 2.07 SSBOND 2 CYS A 203 CYS A 259 1555 1555 2.05 SSBOND 3 CYS B 25 CYS B 80 1555 1555 2.03 LINK NE2 HIS A 260 NI NI A 278 1555 1555 2.20 LINK NI NI A 278 O HOH A 383 1555 1555 2.37 LINK NI NI A 278 O HOH A 384 1555 1555 2.09 LINK NI NI A 278 O HOH A 457 1555 1555 2.11 LINK NI NI A 279 O HOH A 397 1555 1555 2.73 LINK NI NI A 279 O HOH B 178 1555 1555 2.48 LINK NE2 HIS B 34 NI NI B 100 1555 1555 2.27 LINK NE2 HIS B 67 NI NI B 101 1555 1555 2.34 LINK NI NI B 100 O HOH B 134 1555 1555 1.97 LINK NI NI B 100 O HOH B 184 1555 1555 2.77 LINK NI NI B 100 O HOH B 245 1555 1555 2.42 LINK NI NI B 101 O HOH B 135 1555 1555 2.35 LINK NI NI B 101 O HOH B 239 1555 1555 2.28 LINK NI NI B 101 O HOH B 255 1555 1555 2.73 CISPEP 1 SER A 1 PRO A 2 0 -8.31 CISPEP 2 GLU A 41 ASN A 42 0 6.21 CISPEP 3 TYR A 209 PRO A 210 0 -0.48 CISPEP 4 HIS B 31 PRO B 32 0 3.21 SITE 1 AC1 6 HIS A 145 GLU A 177 HIS A 260 HOH A 383 SITE 2 AC1 6 HOH A 384 HOH A 457 SITE 1 AC2 3 HIS A 192 HOH A 397 HOH B 178 SITE 1 AC3 5 ASP A 197 HIS B 34 HOH B 134 HOH B 184 SITE 2 AC3 5 HOH B 245 SITE 1 AC4 4 HIS B 67 HOH B 135 HOH B 239 HOH B 255 CRYST1 59.268 72.833 95.844 90.00 90.00 90.00 P 21 21 21 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 0.016873 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013730 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010434 0.00000