HEADER TRANSFERASE 03-SEP-03 1UKX TITLE SOLUTION STRUCTURE OF THE RWD DOMAIN OF MOUSE GCN2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GCN2 EIF2ALPHA KINASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RWD DOMAIN; COMPND 5 SYNONYM: GCN2; COMPND 6 EC: 2.7.1.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: RIKEN CDNA 2900069K12; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P021021-28; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS EIF2ALPHA KINASE, UBC-LIKE FOLD, TRIPLE BETA-TURNS, STRUCTURAL KEYWDS 2 GENOMICS, RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, KEYWDS 3 TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR N.NAMEKI,M.YONEYAMA,S.KOSHIBA,M.INOUE,T.KIGAWA,S.YOKOYAMA,RIKEN AUTHOR 2 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 4 27-DEC-23 1UKX 1 REMARK REVDAT 3 02-MAR-22 1UKX 1 REMARK SEQADV REVDAT 2 24-FEB-09 1UKX 1 VERSN REVDAT 1 03-AUG-04 1UKX 0 JRNL AUTH N.NAMEKI,M.YONEYAMA,S.KOSHIBA,N.TOCHIO,M.INOUE,E.SEKI, JRNL AUTH 2 T.MATSUDA,Y.TOMO,T.HARADA,K.SAITO,N.KOBAYASHI,T.YABUKI, JRNL AUTH 3 M.AOKI,E.NUNOKAWA,N.MATSUDA,N.SAKAGAMI,T.TERADA,M.SHIROUZU, JRNL AUTH 4 M.YOSHIDA,H.HIROTA,T.OSANAI,A.TANAKA,T.ARAKAWA,P.CARNINCI, JRNL AUTH 5 J.KAWAI,Y.HAYASHIZAKI,K.KINOSHITA,P.GUNTERT,T.KIGAWA, JRNL AUTH 6 S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE RWD DOMAIN OF THE MOUSE GCN2 JRNL TITL 2 PROTEIN. JRNL REF PROTEIN SCI. V. 13 2089 2004 JRNL REFN ISSN 0961-8368 JRNL PMID 15273307 JRNL DOI 10.1110/PS.04751804 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6, OPALP REMARK 3 AUTHORS : BRUKER (XWINNMR), KORADI, R., BILLETER, M., REMARK 3 GUENTERT, P. (OPALP) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1UKX COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-SEP-03. REMARK 100 THE DEPOSITION ID IS D_1000005942. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.0MM RWD DOMAIN U-15N, 13C, REMARK 210 20MM D-TRIS-HCL, 100MM NACL, 1MM REMARK 210 D-DTT, 0.02% NAN3, 90% H2O, 10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 20020425, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.815, CYANA 1.0.7 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 RESTRAINED MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS, STRUCTURES REMARK 210 WITH THE LOWEST ENERGY, TARGET REMARK 210 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 LEU A 19 CB - CG - CD1 ANGL. DEV. = 10.5 DEGREES REMARK 500 2 ARG A 40 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 2 ARG A 68 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 5 ARG A 34 CD - NE - CZ ANGL. DEV. = 8.5 DEGREES REMARK 500 12 TYR A 52 CB - CG - CD1 ANGL. DEV. = -4.1 DEGREES REMARK 500 12 ARG A 68 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 14 ARG A 68 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 15 ARG A 40 NE - CZ - NH2 ANGL. DEV. = -3.0 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 GLU A 9 -158.69 -86.84 REMARK 500 1 PRO A 45 80.68 -68.84 REMARK 500 1 ALA A 57 -162.94 61.38 REMARK 500 1 GLU A 59 -147.99 -151.88 REMARK 500 1 VAL A 61 165.91 64.65 REMARK 500 1 TYR A 62 -81.05 -128.83 REMARK 500 1 CYS A 71 139.56 58.03 REMARK 500 1 SER A 91 49.36 -80.12 REMARK 500 1 GLU A 93 -93.73 -87.39 REMARK 500 1 SER A 132 175.52 60.88 REMARK 500 1 PRO A 134 -177.21 -65.79 REMARK 500 1 SER A 136 132.54 -171.99 REMARK 500 2 SER A 2 63.96 31.43 REMARK 500 2 SER A 6 -157.31 56.69 REMARK 500 2 GLU A 9 103.58 -52.16 REMARK 500 2 ARG A 40 -172.63 57.77 REMARK 500 2 LEU A 56 -44.92 -142.97 REMARK 500 2 ALA A 57 -145.99 56.73 REMARK 500 2 GLU A 59 -146.22 -147.93 REMARK 500 2 GLU A 60 -73.73 -58.58 REMARK 500 2 VAL A 61 -171.90 59.99 REMARK 500 2 TYR A 62 -62.26 -145.89 REMARK 500 2 CYS A 71 105.38 56.22 REMARK 500 2 LYS A 88 -92.50 -75.47 REMARK 500 2 SER A 91 -85.03 34.67 REMARK 500 2 ASN A 92 23.02 -143.20 REMARK 500 2 GLU A 93 -114.87 -82.05 REMARK 500 2 SER A 94 13.34 -66.42 REMARK 500 2 LYS A 131 54.71 -66.95 REMARK 500 2 SER A 132 -114.15 -85.87 REMARK 500 2 SER A 136 109.86 -163.64 REMARK 500 3 SER A 3 78.88 -113.22 REMARK 500 3 SER A 5 97.95 64.37 REMARK 500 3 MET A 8 69.45 31.25 REMARK 500 3 TYR A 26 -62.27 -107.33 REMARK 500 3 ALA A 37 152.98 127.15 REMARK 500 3 GLU A 60 -72.38 58.59 REMARK 500 3 VAL A 61 -178.09 63.59 REMARK 500 3 TYR A 62 -80.30 -134.93 REMARK 500 3 CYS A 71 110.75 68.51 REMARK 500 3 ASN A 92 56.87 -172.02 REMARK 500 3 GLU A 93 -75.77 -116.07 REMARK 500 3 LYS A 131 -47.73 -133.95 REMARK 500 3 PRO A 134 -165.31 -72.07 REMARK 500 3 SER A 135 -89.00 -133.70 REMARK 500 4 SER A 2 176.21 63.47 REMARK 500 4 MET A 8 -52.88 -160.19 REMARK 500 4 TYR A 26 -65.79 -106.74 REMARK 500 4 LEU A 33 -55.22 -130.97 REMARK 500 4 ARG A 40 -169.33 -79.82 REMARK 500 REMARK 500 THIS ENTRY HAS 312 RAMACHANDRAN OUTLIERS. 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 PHE A 30 GLN A 31 1 148.91 REMARK 500 SER A 136 GLY A 137 5 -119.85 REMARK 500 VAL A 41 ARG A 42 7 -149.63 REMARK 500 LYS A 70 CYS A 71 11 -147.54 REMARK 500 SER A 136 GLY A 137 12 144.91 REMARK 500 GLU A 9 SER A 10 14 147.37 REMARK 500 SER A 10 TYR A 11 14 141.51 REMARK 500 SER A 136 GLY A 137 19 131.93 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 1 TYR A 52 0.08 SIDE CHAIN REMARK 500 2 ARG A 14 0.16 SIDE CHAIN REMARK 500 4 ARG A 34 0.08 SIDE CHAIN REMARK 500 6 ARG A 34 0.09 SIDE CHAIN REMARK 500 6 ARG A 68 0.10 SIDE CHAIN REMARK 500 8 TYR A 26 0.10 SIDE CHAIN REMARK 500 8 ARG A 34 0.16 SIDE CHAIN REMARK 500 8 ARG A 42 0.11 SIDE CHAIN REMARK 500 8 TYR A 52 0.08 SIDE CHAIN REMARK 500 9 TYR A 52 0.07 SIDE CHAIN REMARK 500 9 ARG A 68 0.08 SIDE CHAIN REMARK 500 10 TYR A 52 0.07 SIDE CHAIN REMARK 500 10 PHE A 125 0.08 SIDE CHAIN REMARK 500 11 ARG A 34 0.09 SIDE CHAIN REMARK 500 13 ARG A 14 0.09 SIDE CHAIN REMARK 500 13 ARG A 34 0.09 SIDE CHAIN REMARK 500 13 TYR A 75 0.09 SIDE CHAIN REMARK 500 14 ARG A 40 0.09 SIDE CHAIN REMARK 500 15 ARG A 14 0.09 SIDE CHAIN REMARK 500 15 ARG A 42 0.09 SIDE CHAIN REMARK 500 16 ARG A 40 0.15 SIDE CHAIN REMARK 500 17 ARG A 34 0.08 SIDE CHAIN REMARK 500 17 TYR A 52 0.11 SIDE CHAIN REMARK 500 18 ARG A 14 0.08 SIDE CHAIN REMARK 500 20 ARG A 34 0.12 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR DETERMINED REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: MMK001004460.1 RELATED DB: TARGETDB DBREF 1UKX A 9 131 UNP Q9QZ05 E2AK4_MOUSE 17 139 SEQADV 1UKX GLY A 1 UNP Q9QZ05 CLONING ARTIFACT SEQADV 1UKX SER A 2 UNP Q9QZ05 CLONING ARTIFACT SEQADV 1UKX SER A 3 UNP Q9QZ05 CLONING ARTIFACT SEQADV 1UKX GLY A 4 UNP Q9QZ05 CLONING ARTIFACT SEQADV 1UKX SER A 5 UNP Q9QZ05 CLONING ARTIFACT SEQADV 1UKX SER A 6 UNP Q9QZ05 CLONING ARTIFACT SEQADV 1UKX GLY A 7 UNP Q9QZ05 CLONING ARTIFACT SEQADV 1UKX MET A 8 UNP Q9QZ05 CLONING ARTIFACT SEQADV 1UKX SER A 132 UNP Q9QZ05 CLONING ARTIFACT SEQADV 1UKX GLY A 133 UNP Q9QZ05 CLONING ARTIFACT SEQADV 1UKX PRO A 134 UNP Q9QZ05 CLONING ARTIFACT SEQADV 1UKX SER A 135 UNP Q9QZ05 CLONING ARTIFACT SEQADV 1UKX SER A 136 UNP Q9QZ05 CLONING ARTIFACT SEQADV 1UKX GLY A 137 UNP Q9QZ05 CLONING ARTIFACT SEQRES 1 A 137 GLY SER SER GLY SER SER GLY MET GLU SER TYR SER GLN SEQRES 2 A 137 ARG GLN ASP HIS GLU LEU GLN ALA LEU GLU ALA ILE TYR SEQRES 3 A 137 GLY SER ASP PHE GLN ASP LEU ARG PRO ASP ALA ARG GLY SEQRES 4 A 137 ARG VAL ARG GLU PRO PRO GLU ILE ASN LEU VAL LEU TYR SEQRES 5 A 137 PRO GLN GLY LEU ALA GLY GLU GLU VAL TYR VAL GLN VAL SEQRES 6 A 137 GLU LEU ARG VAL LYS CYS PRO PRO THR TYR PRO ASP VAL SEQRES 7 A 137 VAL PRO GLU ILE ASP LEU LYS ASN ALA LYS GLY LEU SER SEQRES 8 A 137 ASN GLU SER VAL ASN LEU LEU LYS SER HIS LEU GLU GLU SEQRES 9 A 137 LEU ALA LYS LYS GLN CYS GLY GLU VAL MET ILE PHE GLU SEQRES 10 A 137 LEU ALA HIS HIS VAL GLN SER PHE LEU SER GLU HIS ASN SEQRES 11 A 137 LYS SER GLY PRO SER SER GLY HELIX 1 1 SER A 12 ILE A 25 1 14 HELIX 2 2 VAL A 95 GLN A 109 1 15 HELIX 3 3 ILE A 115 HIS A 129 1 15 SHEET 1 A 4 PHE A 30 ASP A 32 0 SHEET 2 A 4 ILE A 47 LEU A 51 -1 O ASN A 48 N GLN A 31 SHEET 3 A 4 GLN A 64 VAL A 69 -1 O LEU A 67 N LEU A 49 SHEET 4 A 4 ASP A 83 LYS A 88 -1 O ASP A 83 N ARG A 68 CISPEP 1 TYR A 75 PRO A 76 1 0.62 CISPEP 2 TYR A 75 PRO A 76 2 0.24 CISPEP 3 TYR A 75 PRO A 76 3 0.28 CISPEP 4 TYR A 75 PRO A 76 4 -14.53 CISPEP 5 TYR A 75 PRO A 76 5 11.75 CISPEP 6 TYR A 75 PRO A 76 6 15.40 CISPEP 7 TYR A 75 PRO A 76 7 7.13 CISPEP 8 TYR A 75 PRO A 76 8 5.48 CISPEP 9 TYR A 75 PRO A 76 9 1.29 CISPEP 10 TYR A 75 PRO A 76 10 3.22 CISPEP 11 TYR A 75 PRO A 76 11 6.79 CISPEP 12 TYR A 75 PRO A 76 12 3.24 CISPEP 13 TYR A 75 PRO A 76 13 3.61 CISPEP 14 TYR A 75 PRO A 76 14 0.72 CISPEP 15 TYR A 75 PRO A 76 15 13.24 CISPEP 16 TYR A 75 PRO A 76 16 -1.57 CISPEP 17 TYR A 75 PRO A 76 17 8.28 CISPEP 18 TYR A 75 PRO A 76 18 5.34 CISPEP 19 TYR A 75 PRO A 76 19 4.56 CISPEP 20 TYR A 75 PRO A 76 20 10.74 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