HEADER RECOMBINATION 16-MAR-09 3GNA TITLE CRYSTAL STRUCTURE OF THE RAG1 NONAMER-BINDING DOMAIN WITH DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: V(D)J RECOMBINATION-ACTIVATING PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: NONAMER BINDING DOMAIN: UNP RESIDUES 389-456; COMPND 5 SYNONYM: RAG-1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-D(*AP*CP*TP*TP*AP*AP*CP*AP*AP*AP*AP*AP*CP*C)-3'; COMPND 9 CHAIN: D; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: 5'-D(*TP*GP*GP*TP*TP*TP*TP*TP*GP*TP*TP*AP*AP*G)-3'; COMPND 13 CHAIN: E; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: RAG1, RAG-1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: SYNTHETIC DNA; SOURCE 14 MOL_ID: 3; SOURCE 15 SYNTHETIC: YES; SOURCE 16 OTHER_DETAILS: SYNTHETIC DNA KEYWDS VDJ RECOMBINATION, DNA RECOMBINATION, DNA-BINDING, ENDONUCLEASE, KEYWDS 2 HYDROLASE, METAL-BINDING, NUCLEASE, NUCLEUS, ZINC-FINGER, AMINO-ACID KEYWDS 3 BIOSYNTHESIS, ISOMERASE, LYSINE BIOSYNTHESIS, RECOMBINATION EXPDTA X-RAY DIFFRACTION AUTHOR F.F.YIN,S.BAILEY,C.A.INNIS,T.A.STEITZ,D.G.SCHATZ REVDAT 4 21-FEB-24 3GNA 1 SEQADV REVDAT 3 13-JUL-11 3GNA 1 VERSN REVDAT 2 19-MAY-09 3GNA 1 JRNL REVDAT 1 28-APR-09 3GNA 0 JRNL AUTH F.F.YIN,S.BAILEY,C.A.INNIS,M.CIUBOTARU,S.KAMTEKAR, JRNL AUTH 2 T.A.STEITZ,D.G.SCHATZ JRNL TITL STRUCTURE OF THE RAG1 NONAMER BINDING DOMAIN WITH DNA JRNL TITL 2 REVEALS A DIMER THAT MEDIATES DNA SYNAPSIS. JRNL REF NAT.STRUCT.MOL.BIOL. V. 16 499 2009 JRNL REFN ISSN 1545-9993 JRNL PMID 19396172 JRNL DOI 10.1038/NSMB.1593 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 6475 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) : 0.238 REMARK 3 R VALUE (WORKING SET) : 0.236 REMARK 3 FREE R VALUE : 0.271 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 330 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 445 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.54 REMARK 3 BIN R VALUE (WORKING SET) : 0.4440 REMARK 3 BIN FREE R VALUE SET COUNT : 28 REMARK 3 BIN FREE R VALUE : 0.4900 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 553 REMARK 3 NUCLEIC ACID ATOMS : 549 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 8 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 80.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.06000 REMARK 3 B22 (A**2) : 2.06000 REMARK 3 B33 (A**2) : -4.12000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.428 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.274 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.286 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 27.231 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1176 ; 0.006 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 670 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1693 ; 1.204 ; 2.547 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1647 ; 0.909 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 69 ; 3.063 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 30 ;24.528 ;22.333 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 117 ;13.840 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ; 5.929 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 191 ; 0.054 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 891 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 119 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 147 ; 0.192 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 536 ; 0.177 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 425 ; 0.207 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 429 ; 0.081 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 15 ; 0.079 ; 0.200 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): 16 ; 0.094 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 49 ; 0.258 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 3 ; 0.105 ; 0.200 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): 356 ; 0.552 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 139 ; 0.136 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 538 ; 0.880 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1103 ; 0.657 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1154 ; 0.944 ; 2.500 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 NUMBER OF DIFFERENT NCS GROUPS : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : D E REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 D 1 D 14 3 REMARK 3 1 E 1 E 14 3 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 1 D (A): 59 ; 0.11 ; NULL REMARK 3 LOOSE THERMAL 1 D (A**2): 59 ; 0.54 ; 10.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 1 D 14 REMARK 3 RESIDUE RANGE : E 1 E 14 REMARK 3 ORIGIN FOR THE GROUP (A): 48.6557 13.6151 0.0047 REMARK 3 T TENSOR REMARK 3 T11: -0.1524 T22: -0.2498 REMARK 3 T33: -0.1476 T12: -0.0541 REMARK 3 T13: 0.1755 T23: -0.0579 REMARK 3 L TENSOR REMARK 3 L11: 10.0628 L22: 3.2553 REMARK 3 L33: 9.7736 L12: 0.4907 REMARK 3 L13: -0.4802 L23: -2.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.5327 S12: -0.8687 S13: -0.9119 REMARK 3 S21: 0.3831 S22: 0.0545 S23: 0.5290 REMARK 3 S31: -0.0588 S32: -1.4473 S33: -0.5872 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 389 A 456 REMARK 3 ORIGIN FOR THE GROUP (A): 28.1304 24.0217 -0.9018 REMARK 3 T TENSOR REMARK 3 T11: -0.1917 T22: -0.1794 REMARK 3 T33: -0.1874 T12: 0.1449 REMARK 3 T13: 0.0414 T23: -0.0010 REMARK 3 L TENSOR REMARK 3 L11: 4.8448 L22: 5.4101 REMARK 3 L33: 7.2146 L12: -2.5641 REMARK 3 L13: -1.7595 L23: 1.2282 REMARK 3 S TENSOR REMARK 3 S11: -0.2851 S12: -0.4014 S13: -0.6115 REMARK 3 S21: 0.1432 S22: 0.1556 S23: 0.4341 REMARK 3 S31: 0.1235 S32: 0.3854 S33: 0.1295 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: 1. THE FRIEDEL PAIRS WERE USED IN REMARK 3 PHASING. 2. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 4 REMARK 4 3GNA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-MAR-09. REMARK 100 THE DEPOSITION ID IS D_1000052073. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-APR-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 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-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.008 REMARK 200 MONOCHROMATOR : SI(111) CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7526 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.04800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.43 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.00000 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: MIR REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG 400, PH 7.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 48.73500 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 48.73500 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 34.89000 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 48.73500 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 48.73500 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 34.89000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 48.73500 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 48.73500 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 34.89000 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 48.73500 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 48.73500 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 34.89000 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 48.73500 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 48.73500 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 34.89000 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 48.73500 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 48.73500 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 34.89000 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 48.73500 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 48.73500 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 34.89000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 48.73500 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 48.73500 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 34.89000 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: HEXAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 6 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 369 REMARK 465 GLY A 370 REMARK 465 SER A 371 REMARK 465 SER A 372 REMARK 465 HIS A 373 REMARK 465 HIS A 374 REMARK 465 HIS A 375 REMARK 465 HIS A 376 REMARK 465 HIS A 377 REMARK 465 HIS A 378 REMARK 465 SER A 379 REMARK 465 SER A 380 REMARK 465 GLY A 381 REMARK 465 LEU A 382 REMARK 465 VAL A 383 REMARK 465 PRO A 384 REMARK 465 GLY A 385 REMARK 465 SER A 386 REMARK 465 HIS A 387 REMARK 465 MET A 388 REMARK 465 GLY A 457 REMARK 465 ARG A 458 REMARK 465 GLY A 459 REMARK 465 SER A 460 REMARK 465 GLY A 461 REMARK 465 LEU A 462 REMARK 465 GLN A 463 REMARK 465 PRO A 464 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 DA D 1 N9 C8 N7 C5 C6 N6 N1 REMARK 470 DA D 1 C2 N3 C4 REMARK 470 DT E 1 N1 C2 O2 N3 C4 O4 C5 REMARK 470 DT E 1 C7 C6 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 DC D 2 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 DA D 8 N1 - C2 - N3 ANGL. DEV. = -3.3 DEGREES REMARK 500 DA D 8 C2 - N3 - C4 ANGL. DEV. = 3.0 DEGREES REMARK 500 DA D 9 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DA D 10 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DC D 13 O4' - C4' - C3' ANGL. DEV. = -3.7 DEGREES REMARK 500 DC D 13 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 DC D 14 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 DG E 3 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DT E 4 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DT E 10 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 DA E 13 O4' - C4' - C3' ANGL. DEV. = -3.8 DEGREES REMARK 500 DA E 13 O4' - C1' - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3GNB RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE RAG1 NONAMER-BINDING DOMAIN WITH DNA DBREF 3GNA A 389 464 UNP P15919 RAG1_MOUSE 389 464 DBREF 3GNA D 1 14 PDB 3GNA 3GNA 1 14 DBREF 3GNA E 1 14 PDB 3GNA 3GNA 1 14 SEQADV 3GNA MET A 369 UNP P15919 EXPRESSION TAG SEQADV 3GNA GLY A 370 UNP P15919 EXPRESSION TAG SEQADV 3GNA SER A 371 UNP P15919 EXPRESSION TAG SEQADV 3GNA SER A 372 UNP P15919 EXPRESSION TAG SEQADV 3GNA HIS A 373 UNP P15919 EXPRESSION TAG SEQADV 3GNA HIS A 374 UNP P15919 EXPRESSION TAG SEQADV 3GNA HIS A 375 UNP P15919 EXPRESSION TAG SEQADV 3GNA HIS A 376 UNP P15919 EXPRESSION TAG SEQADV 3GNA HIS A 377 UNP P15919 EXPRESSION TAG SEQADV 3GNA HIS A 378 UNP P15919 EXPRESSION TAG SEQADV 3GNA SER A 379 UNP P15919 EXPRESSION TAG SEQADV 3GNA SER A 380 UNP P15919 EXPRESSION TAG SEQADV 3GNA GLY A 381 UNP P15919 EXPRESSION TAG SEQADV 3GNA LEU A 382 UNP P15919 EXPRESSION TAG SEQADV 3GNA VAL A 383 UNP P15919 EXPRESSION TAG SEQADV 3GNA PRO A 384 UNP P15919 EXPRESSION TAG SEQADV 3GNA GLY A 385 UNP P15919 EXPRESSION TAG SEQADV 3GNA SER A 386 UNP P15919 EXPRESSION TAG SEQADV 3GNA HIS A 387 UNP P15919 EXPRESSION TAG SEQADV 3GNA MET A 388 UNP P15919 EXPRESSION TAG SEQRES 1 A 96 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 96 LEU VAL PRO GLY SER HIS MET GLY GLY ARG PRO ARG GLN SEQRES 3 A 96 HIS LEU LEU SER LEU THR ARG ARG ALA GLN LYS HIS ARG SEQRES 4 A 96 LEU ARG GLU LEU LYS ILE GLN VAL LYS GLU PHE ALA ASP SEQRES 5 A 96 LYS GLU GLU GLY GLY ASP VAL LYS ALA VAL CYS LEU THR SEQRES 6 A 96 LEU PHE LEU LEU ALA LEU ARG ALA ARG ASN GLU HIS ARG SEQRES 7 A 96 GLN ALA ASP GLU LEU GLU ALA ILE MET GLN GLY ARG GLY SEQRES 8 A 96 SER GLY LEU GLN PRO SEQRES 1 D 14 DA DC DT DT DA DA DC DA DA DA DA DA DC SEQRES 2 D 14 DC SEQRES 1 E 14 DT DG DG DT DT DT DT DT DG DT DT DA DA SEQRES 2 E 14 DG FORMUL 4 HOH *8(H2 O) HELIX 1 1 HIS A 395 LEU A 399 5 5 HELIX 2 2 THR A 400 GLU A 423 1 24 HELIX 3 3 ASP A 426 ARG A 442 1 17 HELIX 4 4 GLU A 444 MET A 455 1 12 CRYST1 97.470 97.470 69.780 90.00 90.00 90.00 I 4 2 2 16 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 0.010260 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010260 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014331 0.00000