HEADER IMMUNE SYSTEM 30-APR-21 7ODU TITLE NATURAL KILLER CELL RECEPTOR NKR-P1B FROM RATTUS NORVEGICUS IN COMPLEX TITLE 2 WITH ITS COGNATE LIGAND CLR-11 COMPND MOL_ID: 1; COMPND 2 MOLECULE: C-TYPE LECTIN DOMAIN FAMILY 2 MEMBER D11; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: C-TYPE LECTIN-RELATED PROTEIN B,CLR-B,LECTIN-LIKE COMPND 5 TRANSMEMBRANE PROTEIN,OSTEOCLAST INHIBITORY LECTIN; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: STRAIN OF RAT: WAG; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: KILLER CELL LECTIN-LIKE RECEPTOR SUBFAMILY B MEMBER 1B COMPND 10 ALLELE A; COMPND 11 CHAIN: C; COMPND 12 SYNONYM: CD161 ANTIGEN-LIKE FAMILY MEMBER B,NATURAL KILLER CELL COMPND 13 SURFACE PROTEIN NKR-P1B ALLELE RNK/SD/BN/F344; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 STRAIN: STRAIN OF RAT: WAG; SOURCE 6 GENE: CLEC2D11, CLRB, OCIL; SOURCE 7 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: HEK293S GNTI-; SOURCE 10 EXPRESSION_SYSTEM_ATCC_NUMBER: CRL-3022; SOURCE 11 EXPRESSION_SYSTEM_ORGAN: KIDNEY; SOURCE 12 EXPRESSION_SYSTEM_TISSUE: HUMAN EMBRYONIC KIDNEY; SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PTW5SEC; SOURCE 15 MOL_ID: 2; SOURCE 16 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 17 ORGANISM_COMMON: RAT; SOURCE 18 ORGANISM_TAXID: 10116; SOURCE 19 CELL: NATURAL KILLER CELLS; SOURCE 20 GENE: KLRB1B, NKRP1B; SOURCE 21 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 22 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 23 EXPRESSION_SYSTEM_CELL_LINE: HEK293S GNTI-; SOURCE 24 EXPRESSION_SYSTEM_ATCC_NUMBER: CRL-3022; SOURCE 25 EXPRESSION_SYSTEM_ORGAN: KIDNEY; SOURCE 26 EXPRESSION_SYSTEM_TISSUE: HUMAN EMBRYONIC KIDNEY; SOURCE 27 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 28 EXPRESSION_SYSTEM_PLASMID: PYD5 KEYWDS RECEPTOR, CTLD FOLD, NATURAL KILLER CELL, PROTEIN COMPLEX, IMMUNE KEYWDS 2 SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR T.SKALOVA,J.BLAHA,B.KALOUSKOVA,O.SKOREPA,O.VANEK,J.DOHNALEK REVDAT 2 31-JAN-24 7ODU 1 REMARK REVDAT 1 01-JUN-22 7ODU 0 JRNL AUTH T.SKALOVA,O.VANEK,B.KALOUSKOVA,O.SKOREPA,J.BLAHA,K.HARLOS, JRNL AUTH 2 J.DOHNALEK JRNL TITL NATURAL KILLER CELL RECEPTOR NKR-P1B FROM RATTUS NORVEGICUS JRNL TITL 2 IN COMPLEX WITH ITS COGNATE LIGAND CLR-11 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH O.VANEK,P.CELADOVA,O.SKOREPA,J.BLAHA,B.KALOUSKOVA,A.DVORSKA, REMARK 1 AUTH 2 E.POLACHOVA,H.PUCHOLTOVA,D.KAVAN,P.POMPACH,K.HOFBAUEROVA, REMARK 1 AUTH 3 V.KOPECKY JR,A.MESCI,S.VOIGT,J.R.CARLYLE REMARK 1 TITL PRODUCTION OF RECOMBINANT SOLUBLE DIMERIC C-TYPE LECTIN-LIKE REMARK 1 TITL 2 RECEPTORS OF RAT NATURAL KILLER CELLS REMARK 1 REF SCI.REP. V.9(1) 17836 2019 REMARK 1 REFN ESSN 2045-2322 REMARK 1 PMID 31780667 REMARK 1 DOI 10.1038/S41598-019-52114-8 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.77 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 16275 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.300 REMARK 3 FREE R VALUE TEST SET COUNT : 861 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1191 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.92 REMARK 3 BIN R VALUE (WORKING SET) : 0.3900 REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3055 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 99 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 91.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 107.3 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.83000 REMARK 3 B22 (A**2) : 2.83000 REMARK 3 B33 (A**2) : -9.17000 REMARK 3 B12 (A**2) : 1.41000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.580 REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.253 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.169 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.945 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3255 ; 0.008 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2800 ; 0.003 ; 0.018 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4423 ; 1.735 ; 1.681 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6463 ; 1.235 ; 1.627 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 369 ; 9.098 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 188 ;33.487 ;21.915 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 509 ;19.431 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;18.627 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 420 ; 0.065 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3674 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 840 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 74 194 B 74 194 3880 0.130 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS; U VALUES WERE REFINED INDIVIDUALLY; ALL REFLECTIONS REMARK 3 WERE USED IN THE LAST REFINEMENT CYCLE REMARK 4 REMARK 4 7ODU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-MAY-21. REMARK 100 THE DEPOSITION ID IS D_1292114635. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-APR-16 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 : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97625 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16302 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 49.770 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 8.400 REMARK 200 R MERGE (I) : 0.12300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.70 REMARK 200 R MERGE FOR SHELL (I) : 1.67700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: BALBES REMARK 200 STARTING MODEL: 3FF8 REMARK 200 REMARK 200 REMARK: MERGED DATA FROM TWO CRYSTALS FROM THE SAME REMARK 200 CRYSTALLIZATION CONDITION REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 73.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200 MM NACL, 100 MM SODIUM ACETATE, 20 REMARK 280 MM ZNCL2, 20% PEG 6000, PH 5.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 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+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 73.40467 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 36.70233 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 36.70233 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 73.40467 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, D, E 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, E 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 APPLY THE FOLLOWING TO CHAINS: C, E REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 73.40467 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13670 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, D 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 HIS A 203 REMARK 465 HIS A 204 REMARK 465 HIS A 205 REMARK 465 GLY A 206 REMARK 465 GLY B 196 REMARK 465 THR B 197 REMARK 465 HIS B 198 REMARK 465 HIS B 199 REMARK 465 HIS B 200 REMARK 465 HIS B 201 REMARK 465 HIS B 202 REMARK 465 HIS B 203 REMARK 465 HIS B 204 REMARK 465 HIS B 205 REMARK 465 GLY B 206 REMARK 465 GLY C 75 REMARK 465 THR C 76 REMARK 465 GLY C 77 REMARK 465 VAL C 78 REMARK 465 GLN C 79 REMARK 465 GLU C 80 REMARK 465 ASN C 81 REMARK 465 ARG C 82 REMARK 465 THR C 83 REMARK 465 LYS C 84 REMARK 465 THR C 85 REMARK 465 THR C 86 REMARK 465 ASP C 87 REMARK 465 SER C 88 REMARK 465 PRO C 89 REMARK 465 ALA C 90 REMARK 465 LYS C 91 REMARK 465 LEU C 92 REMARK 465 LEU C 214 REMARK 465 LYS C 215 REMARK 465 ARG C 216 REMARK 465 GLU C 217 REMARK 465 SER C 218 REMARK 465 THR C 219 REMARK 465 CYS C 220 REMARK 465 ASN C 221 REMARK 465 ASP C 222 REMARK 465 SER C 223 REMARK 465 GLY C 224 REMARK 465 THR C 225 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 OH TYR A 183 O SER C 199 2.19 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 ALA A 78 128.17 -172.02 REMARK 500 ASN A 83 -4.33 79.37 REMARK 500 ALA A 116 130.18 -36.79 REMARK 500 LYS A 131 -60.97 -24.16 REMARK 500 TRP A 151 174.68 -59.60 REMARK 500 ASN A 154 2.02 89.88 REMARK 500 ILE A 175 54.92 -115.43 REMARK 500 SER A 195 146.00 169.22 REMARK 500 ASN B 83 -1.21 80.12 REMARK 500 ASN B 89 3.66 -61.30 REMARK 500 ALA B 116 131.14 -36.85 REMARK 500 LYS B 131 -59.22 -22.81 REMARK 500 ASN B 154 5.52 88.03 REMARK 500 SER B 160 51.41 -90.36 REMARK 500 HIS C 101 124.68 -173.90 REMARK 500 THR C 111 142.25 -179.40 REMARK 500 GLN C 133 -72.21 -62.29 REMARK 500 ILE C 168 12.81 -66.55 REMARK 500 THR C 172 151.01 -45.52 REMARK 500 ILE C 207 133.76 -34.76 REMARK 500 LYS C 212 -158.00 -136.39 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 160 LEU A 161 147.34 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 ZN A 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 112 OE2 REMARK 620 2 HIS A 198 NE2 122.1 REMARK 620 3 HIS A 200 ND1 81.8 112.1 REMARK 620 4 ASP B 135 OD2 71.8 71.2 149.0 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5J2S RELATED DB: PDB REMARK 900 NKR-P1B ONLY DBREF 7ODU A 77 195 UNP Q0H8B9 CL2DB_RAT 77 195 DBREF 7ODU B 77 195 UNP Q0H8B9 CL2DB_RAT 77 195 DBREF 7ODU C 78 223 UNP A4KWA1 KRBBA_RAT 78 223 SEQADV 7ODU ILE A 74 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU THR A 75 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU GLY A 76 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU ARG A 192 UNP Q0H8B9 LYS 192 VARIANT SEQADV 7ODU GLY A 196 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU THR A 197 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS A 198 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS A 199 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS A 200 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS A 201 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS A 202 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS A 203 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS A 204 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS A 205 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU GLY A 206 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU ILE B 74 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU THR B 75 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU GLY B 76 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU ARG B 192 UNP Q0H8B9 LYS 192 VARIANT SEQADV 7ODU GLY B 196 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU THR B 197 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS B 198 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS B 199 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS B 200 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS B 201 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS B 202 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS B 203 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS B 204 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU HIS B 205 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU GLY B 206 UNP Q0H8B9 EXPRESSION TAG SEQADV 7ODU GLY C 75 UNP A4KWA1 EXPRESSION TAG SEQADV 7ODU THR C 76 UNP A4KWA1 EXPRESSION TAG SEQADV 7ODU GLY C 77 UNP A4KWA1 EXPRESSION TAG SEQADV 7ODU GLY C 224 UNP A4KWA1 EXPRESSION TAG SEQADV 7ODU THR C 225 UNP A4KWA1 EXPRESSION TAG SEQRES 1 A 133 ILE THR GLY TYR ALA ALA CYS PRO ARG ASN TRP ILE GLY SEQRES 2 A 133 VAL GLY ASN LYS CYS PHE TYR PHE SER GLU TYR ALA SER SEQRES 3 A 133 ASN TRP THR PHE SER GLN THR PHE CYS LYS ALA GLN GLU SEQRES 4 A 133 ALA GLU LEU ALA ARG PHE ASP THR GLU GLU GLU LEU ASN SEQRES 5 A 133 PHE LEU SER ARG TYR LYS GLY SER PHE ASP TYR TRP ILE SEQRES 6 A 133 GLY LEU HIS ARG GLU SER SER GLU HIS PRO TRP LYS TRP SEQRES 7 A 133 THR ASP ASN THR GLN TYR ASN TYR SER LEU SER ILE ARG SEQRES 8 A 133 GLY VAL GLU ARG TYR ALA TYR LEU ASN ASP ILE GLY ILE SEQRES 9 A 133 SER SER ALA ARG VAL TYR ALA ASP LYS ARG TRP SER CYS SEQRES 10 A 133 SER ARG LEU ASN SER GLY THR HIS HIS HIS HIS HIS HIS SEQRES 11 A 133 HIS HIS GLY SEQRES 1 B 133 ILE THR GLY TYR ALA ALA CYS PRO ARG ASN TRP ILE GLY SEQRES 2 B 133 VAL GLY ASN LYS CYS PHE TYR PHE SER GLU TYR ALA SER SEQRES 3 B 133 ASN TRP THR PHE SER GLN THR PHE CYS LYS ALA GLN GLU SEQRES 4 B 133 ALA GLU LEU ALA ARG PHE ASP THR GLU GLU GLU LEU ASN SEQRES 5 B 133 PHE LEU SER ARG TYR LYS GLY SER PHE ASP TYR TRP ILE SEQRES 6 B 133 GLY LEU HIS ARG GLU SER SER GLU HIS PRO TRP LYS TRP SEQRES 7 B 133 THR ASP ASN THR GLN TYR ASN TYR SER LEU SER ILE ARG SEQRES 8 B 133 GLY VAL GLU ARG TYR ALA TYR LEU ASN ASP ILE GLY ILE SEQRES 9 B 133 SER SER ALA ARG VAL TYR ALA ASP LYS ARG TRP SER CYS SEQRES 10 B 133 SER ARG LEU ASN SER GLY THR HIS HIS HIS HIS HIS HIS SEQRES 11 B 133 HIS HIS GLY SEQRES 1 C 151 GLY THR GLY VAL GLN GLU ASN ARG THR LYS THR THR ASP SEQRES 2 C 151 SER PRO ALA LYS LEU LYS CYS PRO LYS ASP TRP HIS SER SEQRES 3 C 151 HIS GLN ASP LYS CYS PHE HIS VAL SER GLN THR SER ILE SEQRES 4 C 151 THR TRP LYS GLY SER LEU ALA ASP CYS GLY GLY LYS GLY SEQRES 5 C 151 ALA THR LEU LEU LEU VAL GLN ASP GLN GLU GLU LEU ARG SEQRES 6 C 151 PHE LEU ARG ASN LEU THR LYS ARG ILE SER SER SER PHE SEQRES 7 C 151 TRP ILE GLY LEU SER TYR THR LEU SER ASP GLU LYS TRP SEQRES 8 C 151 LYS TRP ILE ASN GLY SER THR LEU ASN SER ASP ALA LEU SEQRES 9 C 151 ASN ILE THR GLY ASP THR GLU LYS ASP SER CYS ALA SER SEQRES 10 C 151 VAL SER GLN ASP LYS VAL LEU SER GLU SER CYS ASP SER SEQRES 11 C 151 ASP ASN ILE TRP ILE CYS GLN LYS GLU LEU LYS ARG GLU SEQRES 12 C 151 SER THR CYS ASN ASP SER GLY THR HET NAG D 1 14 HET NAG D 2 14 HET NAG E 1 14 HET NAG E 2 14 HET NAG A 301 14 HET ZN A 302 1 HET NAG B 301 14 HET NAG C 301 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM ZN ZINC ION 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 4 NAG 7(C8 H15 N O6) FORMUL 7 ZN ZN 2+ HELIX 1 AA1 ASN A 100 GLN A 111 1 12 HELIX 2 AA2 THR A 120 LYS A 131 1 12 HELIX 3 AA3 ASN B 100 GLN B 111 1 12 HELIX 4 AA4 THR B 120 LYS B 131 1 12 HELIX 5 AA5 THR C 114 GLY C 124 1 11 HELIX 6 AA6 ASP C 134 THR C 145 1 12 HELIX 7 AA7 ASN C 174 LEU C 178 5 5 SHEET 1 AA1 4 ILE A 85 VAL A 87 0 SHEET 2 AA1 4 LYS A 90 PHE A 94 -1 O PHE A 92 N ILE A 85 SHEET 3 AA1 4 ARG A 187 LEU A 193 -1 O ARG A 192 N CYS A 91 SHEET 4 AA1 4 GLU A 114 LEU A 115 -1 N GLU A 114 O SER A 191 SHEET 1 AA2 6 ILE A 85 VAL A 87 0 SHEET 2 AA2 6 LYS A 90 PHE A 94 -1 O PHE A 92 N ILE A 85 SHEET 3 AA2 6 ARG A 187 LEU A 193 -1 O ARG A 192 N CYS A 91 SHEET 4 AA2 6 TYR A 136 HIS A 141 1 N TRP A 137 O ARG A 187 SHEET 5 AA2 6 TYR A 169 ASN A 173 -1 O LEU A 172 N TYR A 136 SHEET 6 AA2 6 GLY A 176 ALA A 180 -1 O SER A 178 N TYR A 171 SHEET 1 AA3 4 ILE B 85 VAL B 87 0 SHEET 2 AA3 4 LYS B 90 PHE B 94 -1 O PHE B 92 N ILE B 85 SHEET 3 AA3 4 ARG B 187 LEU B 193 -1 O ARG B 192 N CYS B 91 SHEET 4 AA3 4 GLU B 114 LEU B 115 -1 N GLU B 114 O SER B 191 SHEET 1 AA4 6 ILE B 85 VAL B 87 0 SHEET 2 AA4 6 LYS B 90 PHE B 94 -1 O PHE B 92 N ILE B 85 SHEET 3 AA4 6 ARG B 187 LEU B 193 -1 O ARG B 192 N CYS B 91 SHEET 4 AA4 6 TYR B 136 HIS B 141 1 N TRP B 137 O ARG B 187 SHEET 5 AA4 6 TYR B 169 ASN B 173 -1 O LEU B 172 N TYR B 136 SHEET 6 AA4 6 GLY B 176 ALA B 180 -1 O SER B 178 N TYR B 171 SHEET 1 AA5 4 HIS C 99 HIS C 101 0 SHEET 2 AA5 4 LYS C 104 ILE C 113 -1 O LYS C 104 N HIS C 101 SHEET 3 AA5 4 ASN C 206 GLN C 211 -1 O CYS C 210 N HIS C 107 SHEET 4 AA5 4 THR C 128 LEU C 129 -1 N THR C 128 O GLN C 211 SHEET 1 AA6 4 TRP C 165 TRP C 167 0 SHEET 2 AA6 4 SER C 151 TYR C 158 -1 N SER C 157 O LYS C 166 SHEET 3 AA6 4 SER C 188 SER C 193 -1 O VAL C 192 N PHE C 152 SHEET 4 AA6 4 VAL C 197 GLU C 200 -1 O LEU C 198 N SER C 191 SSBOND 1 CYS A 80 CYS A 91 1555 1555 2.07 SSBOND 2 CYS A 108 CYS A 190 1555 1555 2.06 SSBOND 3 CYS B 80 CYS B 91 1555 1555 2.04 SSBOND 4 CYS B 108 CYS B 190 1555 1555 2.07 SSBOND 5 CYS C 94 CYS C 105 1555 1555 2.05 SSBOND 6 CYS C 122 CYS C 210 1555 1555 2.10 SSBOND 7 CYS C 189 CYS C 202 1555 1555 2.08 LINK ND2 ASN A 100 C1 NAG D 1 1555 1555 1.43 LINK ND2 ASN A 158 C1 NAG A 301 1555 1555 1.46 LINK ND2 ASN B 100 C1 NAG B 301 1555 1555 1.49 LINK ND2 ASN C 143 C1 NAG C 301 1555 1555 1.48 LINK ND2 ASN C 169 C1 NAG E 1 1555 1555 1.44 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.46 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.45 LINK OE2 GLU A 112 ZN ZN A 302 1555 1555 2.43 LINK NE2 HIS A 198 ZN ZN A 302 1555 1555 2.29 LINK ND1 HIS A 200 ZN ZN A 302 1555 1555 1.90 LINK ZN ZN A 302 OD2 ASP B 135 3455 1555 1.85 CRYST1 111.593 111.593 110.107 90.00 90.00 120.00 P 32 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 0.008961 0.005174 0.000000 0.00000 SCALE2 0.000000 0.010347 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009082 0.00000