HEADER TRANSLATION 22-OCT-01 1K81 TITLE NMR STRUCTURE OF THE ZINC-RIBBON DOMAIN WITHIN TRANSLATION INITIATION TITLE 2 FACTOR 2 SUBUNIT BETA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE TRANSLATION INITIATION FACTOR 2 BETA SUBUNIT; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: EIF-2-BETA; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCALDOCOCCUS JANNASCHII; SOURCE 3 ORGANISM_TAXID: 2190; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET14B KEYWDS TRANSLATION INITIATION FACTOR, ZINC RIBBON, TRANSLATION EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR S.CHO,D.W.HOFFMAN REVDAT 4 23-FEB-22 1K81 1 REMARK LINK REVDAT 3 24-FEB-09 1K81 1 VERSN REVDAT 2 16-OCT-02 1K81 1 JRNL REVDAT 1 24-APR-02 1K81 0 JRNL AUTH S.CHO,D.W.HOFFMAN JRNL TITL STRUCTURE OF THE BETA SUBUNIT OF TRANSLATION INITIATION JRNL TITL 2 FACTOR 2 FROM THE ARCHAEON METHANOCOCCUS JANNASCHII: A JRNL TITL 3 REPRESENTATIVE OF THE EIF2BETA/EIF5 FAMILY OF PROTEINS JRNL REF BIOCHEMISTRY V. 41 5730 2002 JRNL REFN ISSN 0006-2960 JRNL PMID 11980477 JRNL DOI 10.1021/BI011984N REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1K81 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-OCT-01. REMARK 100 THE DEPOSITION ID IS D_1000014676. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 50 MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM AIF2 BETA U-15N,13C; 10 MM REMARK 210 PHOSPHATE BUFFER REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; 3D_15N- REMARK 210 SEPARATED_ROESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 170 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D AND 3D REMARK 210 HETERONUCLEAR NMR TECHNIQUES. 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: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 1 ILE A 143 C ILE A 143 O -0.137 REMARK 500 1 ILE A 143 C ILE A 143 OXT -0.127 REMARK 500 3 ILE A 143 C ILE A 143 O -0.755 REMARK 500 3 ILE A 143 C ILE A 143 OXT -0.846 REMARK 500 4 ILE A 143 C ILE A 143 O -0.957 REMARK 500 4 ILE A 143 C ILE A 143 OXT -1.047 REMARK 500 5 ILE A 143 C ILE A 143 O -0.330 REMARK 500 5 ILE A 143 C ILE A 143 OXT -0.551 REMARK 500 6 ILE A 143 C ILE A 143 OXT -0.179 REMARK 500 7 ILE A 143 C ILE A 143 OXT -0.232 REMARK 500 8 ILE A 143 C ILE A 143 O -0.242 REMARK 500 8 ILE A 143 C ILE A 143 OXT -0.272 REMARK 500 9 ILE A 143 C ILE A 143 O -0.327 REMARK 500 9 ILE A 143 C ILE A 143 OXT -0.401 REMARK 500 10 ILE A 143 C ILE A 143 OXT -0.126 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 ILE A 143 CA - C - O ANGL. DEV. = -31.0 DEGREES REMARK 500 3 ILE A 143 CA - C - O ANGL. DEV. = -67.8 DEGREES REMARK 500 4 ILE A 143 CA - C - O ANGL. DEV. = -30.5 DEGREES REMARK 500 5 ILE A 143 CA - C - O ANGL. DEV. = 105.4 DEGREES REMARK 500 6 ILE A 143 CA - C - O ANGL. DEV. = -58.2 DEGREES REMARK 500 7 ILE A 143 CA - C - O ANGL. DEV. = -43.0 DEGREES REMARK 500 8 ILE A 143 CA - C - O ANGL. DEV. = -32.4 DEGREES REMARK 500 9 ILE A 143 CA - C - O ANGL. DEV. = -64.4 DEGREES REMARK 500 10 ILE A 143 CA - C - O ANGL. DEV. = -57.4 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 112 34.41 -96.54 REMARK 500 1 PRO A 116 -148.23 -101.15 REMARK 500 1 ARG A 125 35.58 -145.37 REMARK 500 1 ALA A 133 -38.35 133.57 REMARK 500 2 ARG A 111 -95.99 -54.67 REMARK 500 2 GLU A 112 43.39 -105.70 REMARK 500 2 PRO A 116 -151.61 -101.85 REMARK 500 2 ALA A 133 -39.32 131.12 REMARK 500 2 ARG A 141 97.32 62.94 REMARK 500 3 CYS A 110 38.34 -97.33 REMARK 500 3 PRO A 116 -102.07 -80.77 REMARK 500 3 ALA A 133 -38.73 130.34 REMARK 500 3 MET A 142 -175.66 62.43 REMARK 500 4 PRO A 116 -150.55 -103.42 REMARK 500 4 ALA A 133 -42.31 135.37 REMARK 500 4 ARG A 141 67.50 62.46 REMARK 500 5 CYS A 110 142.93 -172.43 REMARK 500 5 GLU A 112 68.61 -154.65 REMARK 500 5 LYS A 115 55.86 -156.77 REMARK 500 5 PRO A 116 -141.81 -97.82 REMARK 500 5 ALA A 133 -39.00 127.48 REMARK 500 5 ARG A 141 43.17 -152.97 REMARK 500 5 MET A 142 108.51 62.20 REMARK 500 6 ILE A 109 -70.22 -55.77 REMARK 500 6 CYS A 113 -53.22 -123.68 REMARK 500 6 LYS A 115 76.28 53.92 REMARK 500 6 PRO A 116 -145.93 -99.77 REMARK 500 6 ARG A 125 34.14 -140.67 REMARK 500 6 ALA A 133 -38.45 135.54 REMARK 500 6 MET A 142 178.67 60.05 REMARK 500 7 ILE A 109 -70.22 -68.11 REMARK 500 7 ARG A 111 83.24 -66.61 REMARK 500 7 GLU A 112 61.96 66.59 REMARK 500 7 CYS A 113 -78.39 -55.00 REMARK 500 7 LYS A 115 -61.76 -169.46 REMARK 500 7 PRO A 116 -99.62 -36.66 REMARK 500 7 ASP A 117 -171.00 171.48 REMARK 500 7 ALA A 133 -42.11 130.49 REMARK 500 7 ARG A 141 65.35 -151.09 REMARK 500 8 CYS A 110 -66.09 77.26 REMARK 500 8 ARG A 111 -64.27 165.06 REMARK 500 8 LYS A 115 -67.60 -177.99 REMARK 500 8 PRO A 116 -104.23 -47.48 REMARK 500 8 ASP A 117 -166.37 168.52 REMARK 500 8 ALA A 133 -38.83 126.34 REMARK 500 8 ARG A 141 113.17 61.21 REMARK 500 8 MET A 142 34.56 -141.26 REMARK 500 9 CYS A 110 -170.00 -172.36 REMARK 500 9 PRO A 116 -150.55 -104.40 REMARK 500 9 ARG A 125 31.94 -140.28 REMARK 500 REMARK 500 THIS ENTRY HAS 57 RAMACHANDRAN OUTLIERS. 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 144 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 110 SG REMARK 620 2 CYS A 113 SG 111.0 REMARK 620 3 CYS A 131 SG 110.7 110.5 REMARK 620 4 CYS A 134 SG 107.2 106.8 110.6 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 ZN A 144 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1K8B RELATED DB: PDB REMARK 900 NMR STRUCTURE ANALYSIS OF THE N-TERMINAL DOMAIN OF ARCHAEAL REMARK 900 TRANSLATION INITIATION FACTOR 2 SUBUNIT BETA DBREF 1K81 A 108 143 UNP Q57562 IF2B_METJA 108 143 SEQRES 1 A 36 VAL ILE CYS ARG GLU CYS GLY LYS PRO ASP THR LYS ILE SEQRES 2 A 36 ILE LYS GLU GLY ARG VAL HIS LEU LEU LYS CYS MET ALA SEQRES 3 A 36 CYS GLY ALA ILE ARG PRO ILE ARG MET ILE HET ZN A 144 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ SHEET 1 A 3 ASP A 117 GLU A 123 0 SHEET 2 A 3 VAL A 126 MET A 132 -1 O LYS A 130 N LYS A 119 SHEET 3 A 3 ALA A 136 ILE A 140 -1 O ILE A 140 N HIS A 127 LINK SG CYS A 110 ZN ZN A 144 1555 1555 2.34 LINK SG CYS A 113 ZN ZN A 144 1555 1555 2.33 LINK SG CYS A 131 ZN ZN A 144 1555 1555 2.34 LINK SG CYS A 134 ZN ZN A 144 1555 1555 2.33 SITE 1 AC1 4 CYS A 110 CYS A 113 CYS A 131 CYS A 134 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