HEADER HYDROLASE 16-JAN-13 2M3D TITLE NMR STRUCTURE OF THE GUCT DOMAIN FROM HUMAN DEAD BOX POLYPEPTIDE 21 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOLAR RNA HELICASE 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 617-710; COMPND 5 SYNONYM: DEAD BOX PROTEIN 21, GU-ALPHA, NUCLEOLAR RNA HELICASE GU, COMPND 6 NUCLEOLAR RNA HELICASE II, RH II/GU; COMPND 7 EC: 3.6.4.13; COMPND 8 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: DDX21; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PSPEEDET KEYWDS GUCT DOMAIN, RRM FOLD, HYDROLASE, STRUCTURAL GENOMICS, PSI-BIOLOGY, KEYWDS 2 JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PARTNERSHIP FOR T-CELL KEYWDS 3 BIOLOGY, TCELL EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.K.DUTTA,P.SERRANO,M.GERALT,K.WUTHRICH,JOINT CENTER FOR STRUCTURAL AUTHOR 2 GENOMICS (JCSG),PARTNERSHIP FOR T-CELL BIOLOGY (TCELL) REVDAT 4 15-MAY-24 2M3D 1 REMARK REVDAT 3 14-JUN-23 2M3D 1 REMARK REVDAT 2 01-FEB-23 2M3D 1 REMARK SEQADV REVDAT 1 30-JAN-13 2M3D 0 JRNL AUTH S.K.DUTTA,P.SERRANO,M.GERALT,K.WUTHRICH JRNL TITL NMR STRUCTURE OF THE GUCT DOMAIN FROM HUMAN DEAD BOX JRNL TITL 2 POLYPEPTIDE 21 (DDX21) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 3.0, OPAL REMARK 3 AUTHORS : GUNTERT P. (CYANA), LUGINBUHL, GUNTERT, BILLETER REMARK 3 AND WUTHRICH (OPAL) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2M3D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-JAN-13. REMARK 100 THE DEPOSITION ID IS D_1000103157. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 0.798 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.2 MM [U-99% 13C; U-99% 15N] REMARK 210 PROTEIN, 20 MM SODIUM PHOSPHATE, REMARK 210 50 MM SODIUM CHLORIDE, 5 MM REMARK 210 SODIUM AZIDE, 95 % [U-99% 2H] REMARK 210 D2O, 5 % H2O, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D 1H-15N NOESY; 4D REMARK 210 APSY HACANH; 5D APSY HACACONH; REMARK 210 5D APSY CBCACONH REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3.1, CARA, J-UNIO REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 80 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE 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 1 VAL A 66 CG1 - CB - CG2 ANGL. DEV. = 9.7 DEGREES REMARK 500 2 ARG A 86 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 7 ARG A 87 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 7 ARG A 87 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 17 VAL A 19 CA - CB - CG1 ANGL. DEV. = 11.1 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 1 LEU A 14 23.89 -74.94 REMARK 500 1 ILE A 15 61.98 -161.35 REMARK 500 1 SER A 17 6.38 -153.09 REMARK 500 1 SER A 29 42.99 -101.57 REMARK 500 1 LYS A 55 -154.51 -99.35 REMARK 500 1 ARG A 86 -2.81 -51.82 REMARK 500 1 ARG A 87 -33.42 -159.26 REMARK 500 2 HIS A 2 37.81 -148.34 REMARK 500 2 ILE A 3 104.46 -160.91 REMARK 500 2 ASP A 10 30.70 -143.77 REMARK 500 2 ASN A 16 -4.91 -58.02 REMARK 500 2 SER A 17 49.16 -158.24 REMARK 500 2 ASN A 18 27.57 -148.24 REMARK 500 2 ARG A 86 -6.68 -57.31 REMARK 500 2 ARG A 87 -7.45 -152.49 REMARK 500 3 ALA A 6 23.35 -141.26 REMARK 500 3 ASP A 10 74.79 -103.39 REMARK 500 3 SER A 17 22.32 -148.88 REMARK 500 3 LYS A 55 -169.58 -78.19 REMARK 500 3 LYS A 63 -2.93 66.67 REMARK 500 3 THR A 94 -33.04 -141.79 REMARK 500 4 HIS A 2 -41.14 -157.56 REMARK 500 4 THR A 7 35.42 -78.91 REMARK 500 4 ARG A 12 -85.50 -82.68 REMARK 500 4 SER A 17 12.56 -145.85 REMARK 500 4 GLN A 45 -60.22 -106.01 REMARK 500 4 LYS A 63 -14.02 66.11 REMARK 500 4 ARG A 86 -6.38 -59.90 REMARK 500 5 ILE A 3 68.82 -102.12 REMARK 500 5 SER A 17 80.60 -159.55 REMARK 500 5 ASN A 18 -85.31 -112.41 REMARK 500 5 ASP A 84 174.81 54.73 REMARK 500 5 SER A 91 176.15 174.87 REMARK 500 6 HIS A 2 175.96 69.92 REMARK 500 6 VAL A 9 21.03 -72.65 REMARK 500 6 GLN A 11 130.39 -174.28 REMARK 500 6 ARG A 12 -68.00 -127.13 REMARK 500 6 MET A 32 78.87 -115.51 REMARK 500 6 MET A 57 138.82 55.72 REMARK 500 6 LYS A 63 25.13 -68.53 REMARK 500 6 ARG A 86 -62.82 57.47 REMARK 500 6 ARG A 87 -2.95 -154.21 REMARK 500 7 HIS A 2 118.76 -177.45 REMARK 500 7 SER A 4 91.91 -162.47 REMARK 500 7 ALA A 6 22.17 -147.38 REMARK 500 7 VAL A 9 66.56 -118.62 REMARK 500 7 GLN A 11 115.67 -165.78 REMARK 500 7 ARG A 12 -78.49 -128.59 REMARK 500 7 LEU A 14 27.02 -69.78 REMARK 500 7 SER A 17 86.34 -156.92 REMARK 500 REMARK 500 THIS ENTRY HAS 151 RAMACHANDRAN OUTLIERS. 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 4 TYR A 37 0.07 SIDE CHAIN REMARK 500 8 TYR A 37 0.08 SIDE CHAIN REMARK 500 17 TYR A 37 0.08 SIDE CHAIN REMARK 500 18 TYR A 37 0.08 SIDE CHAIN REMARK 500 18 ARG A 86 0.08 SIDE CHAIN REMARK 500 19 ARG A 86 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 18954 RELATED DB: BMRB REMARK 900 RELATED ID: JCSG-423981 RELATED DB: TARGETTRACK DBREF 2M3D A 2 95 UNP Q9NR30 DDX21_HUMAN 617 710 SEQADV 2M3D GLY A 1 UNP Q9NR30 EXPRESSION TAG SEQRES 1 A 95 GLY HIS ILE SER GLY ALA THR SER VAL ASP GLN ARG SER SEQRES 2 A 95 LEU ILE ASN SER ASN VAL GLY PHE VAL THR MET ILE LEU SEQRES 3 A 95 GLN CYS SER ILE GLU MET PRO ASN ILE SER TYR ALA TRP SEQRES 4 A 95 LYS GLU LEU LYS GLU GLN LEU GLY GLU GLU ILE ASP SER SEQRES 5 A 95 LYS VAL LYS GLY MET VAL PHE LEU LYS GLY LYS LEU GLY SEQRES 6 A 95 VAL CYS PHE ASP VAL PRO THR ALA SER VAL THR GLU ILE SEQRES 7 A 95 GLN GLU LYS TRP HIS ASP SER ARG ARG TRP GLN LEU SER SEQRES 8 A 95 VAL ALA THR GLU HELIX 1 1 ILE A 35 LEU A 46 1 12 HELIX 2 2 LYS A 61 LYS A 63 5 3 HELIX 3 3 THR A 72 GLN A 79 1 8 SHEET 1 A 4 VAL A 58 PHE A 59 0 SHEET 2 A 4 GLY A 65 PRO A 71 -1 O CYS A 67 N VAL A 58 SHEET 3 A 4 PHE A 21 GLN A 27 -1 N MET A 24 O PHE A 68 SHEET 4 A 4 GLN A 89 VAL A 92 -1 O SER A 91 N ILE A 25 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1