HEADER TRANSCRIPTION REGULATOR 12-SEP-09 2KO8 TITLE THE STRUCTURE OF ANTI-TRAP COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRYPTOPHAN RNA-BINDING ATTENUATOR PROTEIN INHIBITORY COMPND 3 PROTEIN; COMPND 4 CHAIN: A, B, C; COMPND 5 SYNONYM: ANTI-TRAP PROTEIN, AT; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 GENE: BSU02530, RTPA, YCZA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: DE3; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET24A KEYWDS PROTEIN, TRANSCRIPTION, TRANSCRIPTION REGULATION, TRANSCRIPTION KEYWDS 2 REGULATOR EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR C.A.MCELROY,P.GOLLNICK,M.P.FOSTER REVDAT 2 26-FEB-20 2KO8 1 LINK REVDAT 1 22-SEP-10 2KO8 0 JRNL AUTH C.A.MCELROY,P.GOLLNICK,M.P.FOSTER JRNL TITL SOLUTION STRUCTURE OF THE B. SUBTILIS ANTI-TRAP TRIMER AND JRNL TITL 2 ITS INTERACTION WITH TRAP JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE, ARIA REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), LINGE, O'DONOGHUE AND NILGES (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: LAST ROUND OF REFINEMENT WAS PERFORMED REMARK 3 IN ARIA AND INCLUDED EXPLICIT SOLVENT REMARK 4 REMARK 4 2KO8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-SEP-09. REMARK 100 THE DEPOSITION ID IS D_1000101365. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 328 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : 20 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 5-10 MM [U-13C; U-15N] PROTEIN, REMARK 210 20 MM [U-2H] TRIS, 20 MM BETA- REMARK 210 MERCAPTOETHANOL, 1 MM ZNCL2, 90% REMARK 210 H2O/10% D2O; 5-10 MM [U-13C; U- REMARK 210 15N] PROTEIN, 20 MM [U-2H] TRIS, REMARK 210 20 MM BETA-MERCAPTOETHANOL, 1 MM REMARK 210 ZNCL2, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCO; 3D REMARK 210 HNCACB; 3D C(CO)NH; 3D H(CCO)NH; REMARK 210 3D HCCH-COSY; 3D 1H-15N TOCSY; REMARK 210 2D 1H-13C HSQC; 3D HNHA; 3D HNHB; REMARK 210 3D HACAHB-COSY; 3D 1H-13C NOESY; REMARK 210 3D 1H-15N/13C TIME-SHARED NOESY; REMARK 210 2D HCCH-COSY AROMATIC; 2D 1H- REMARK 210 13C HSQC AROMATIC; 2D IPAP; 2D REMARK 210 15N HETERONUCLEAR NOE; 2D 15N REMARK 210 HETERONUCLEAR T2; 2D 15N REMARK 210 HETERONUCLEAR T1 REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRVIEW, CNS REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 300 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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: 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 O GLN C 48 H LYS C 53 1.53 REMARK 500 O GLN B 48 H LYS B 53 1.54 REMARK 500 O GLN A 48 H LYS A 53 1.54 REMARK 500 OE1 GLU B 9 HZ3 LYS C 49 1.59 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 LYS A 14 -31.88 -148.54 REMARK 500 1 ARG A 17 -21.32 -147.77 REMARK 500 1 ALA A 18 -31.81 -137.17 REMARK 500 1 GLU A 20 -156.64 -135.06 REMARK 500 1 ILE A 21 95.46 -174.93 REMARK 500 1 SER A 30 51.67 -68.12 REMARK 500 1 LYS B 14 -29.71 -148.69 REMARK 500 1 ARG B 17 -24.00 -148.81 REMARK 500 1 ALA B 18 -31.08 -136.33 REMARK 500 1 SER B 30 53.12 -69.40 REMARK 500 1 LYS C 14 -29.94 -147.53 REMARK 500 1 ARG C 17 -22.77 -148.08 REMARK 500 1 ALA C 18 -30.37 -137.83 REMARK 500 1 SER C 30 53.75 -69.58 REMARK 500 2 LYS A 14 -34.71 -153.97 REMARK 500 2 ARG A 17 -29.60 -148.85 REMARK 500 2 PRO A 27 -52.30 -26.50 REMARK 500 2 ASN A 52 -30.68 -136.74 REMARK 500 2 LYS B 14 -33.56 -153.75 REMARK 500 2 ARG B 17 -29.26 -148.92 REMARK 500 2 PRO B 27 -51.93 -26.69 REMARK 500 2 ASN B 52 -31.15 -136.44 REMARK 500 2 LYS C 14 -34.32 -153.25 REMARK 500 2 ARG C 17 -27.24 -148.74 REMARK 500 2 PRO C 27 -51.50 -25.48 REMARK 500 3 LYS A 14 -25.83 -146.34 REMARK 500 3 GLU A 16 35.68 -90.66 REMARK 500 3 ARG A 17 -23.92 -149.37 REMARK 500 3 LYS B 14 -24.52 -146.01 REMARK 500 3 GLU B 16 34.48 -90.33 REMARK 500 3 ARG B 17 -25.95 -150.25 REMARK 500 3 PRO B 27 -57.99 -29.69 REMARK 500 3 LYS C 14 -26.59 -144.98 REMARK 500 3 GLU C 16 35.30 -89.53 REMARK 500 3 ARG C 17 -25.57 -149.25 REMARK 500 4 LYS A 14 -29.70 -152.24 REMARK 500 4 ARG A 17 -24.22 -148.68 REMARK 500 4 ALA A 18 -36.13 -130.32 REMARK 500 4 LYS B 14 -31.00 -151.31 REMARK 500 4 ARG B 17 -27.19 -147.97 REMARK 500 4 LYS C 14 -31.84 -153.40 REMARK 500 4 ARG C 17 -25.04 -147.72 REMARK 500 5 PRO A 13 -36.46 -38.37 REMARK 500 5 LYS A 14 -30.59 -143.64 REMARK 500 5 ARG A 17 -26.82 -148.53 REMARK 500 5 PRO A 27 -52.55 -27.42 REMARK 500 5 LYS B 14 -26.73 -140.26 REMARK 500 5 GLU B 16 15.45 -152.84 REMARK 500 5 ARG B 17 -30.17 -148.49 REMARK 500 5 PRO B 27 -53.51 -27.36 REMARK 500 REMARK 500 THIS ENTRY HAS 218 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 54 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 12 SG REMARK 620 2 CYS A 15 SG 113.7 REMARK 620 3 CYS A 26 SG 119.9 104.1 REMARK 620 4 CYS A 29 SG 101.4 109.6 107.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 54 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 12 SG REMARK 620 2 CYS B 15 SG 111.0 REMARK 620 3 CYS B 26 SG 129.0 100.4 REMARK 620 4 CYS B 29 SG 102.6 105.6 106.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 54 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 12 SG REMARK 620 2 CYS C 15 SG 112.3 REMARK 620 3 CYS C 26 SG 147.9 99.5 REMARK 620 4 CYS C 29 SG 92.3 90.5 92.0 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 54 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 54 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 54 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16492 RELATED DB: BMRB DBREF 2KO8 A 1 53 UNP O31466 RTPA_BACSU 1 53 DBREF 2KO8 B 1 53 UNP O31466 RTPA_BACSU 1 53 DBREF 2KO8 C 1 53 UNP O31466 RTPA_BACSU 1 53 SEQRES 1 A 53 FME VAL ILE ALA THR ASP ASP LEU GLU VAL ALA CYS PRO SEQRES 2 A 53 LYS CYS GLU ARG ALA GLY GLU ILE GLU GLY THR PRO CYS SEQRES 3 A 53 PRO ALA CYS SER GLY LYS GLY VAL ILE LEU THR ALA GLN SEQRES 4 A 53 GLY TYR THR LEU LEU ASP PHE ILE GLN LYS HIS LEU ASN SEQRES 5 A 53 LYS SEQRES 1 B 53 FME VAL ILE ALA THR ASP ASP LEU GLU VAL ALA CYS PRO SEQRES 2 B 53 LYS CYS GLU ARG ALA GLY GLU ILE GLU GLY THR PRO CYS SEQRES 3 B 53 PRO ALA CYS SER GLY LYS GLY VAL ILE LEU THR ALA GLN SEQRES 4 B 53 GLY TYR THR LEU LEU ASP PHE ILE GLN LYS HIS LEU ASN SEQRES 5 B 53 LYS SEQRES 1 C 53 FME VAL ILE ALA THR ASP ASP LEU GLU VAL ALA CYS PRO SEQRES 2 C 53 LYS CYS GLU ARG ALA GLY GLU ILE GLU GLY THR PRO CYS SEQRES 3 C 53 PRO ALA CYS SER GLY LYS GLY VAL ILE LEU THR ALA GLN SEQRES 4 C 53 GLY TYR THR LEU LEU ASP PHE ILE GLN LYS HIS LEU ASN SEQRES 5 C 53 LYS MODRES 2KO8 FME A 1 MET N-FORMYLMETHIONINE MODRES 2KO8 FME B 1 MET N-FORMYLMETHIONINE MODRES 2KO8 FME C 1 MET N-FORMYLMETHIONINE HET FME A 1 20 HET FME B 1 20 HET FME C 1 20 HET ZN A 54 1 HET ZN B 54 1 HET ZN C 54 1 HETNAM FME N-FORMYLMETHIONINE HETNAM ZN ZINC ION FORMUL 1 FME 3(C6 H11 N O3 S) FORMUL 4 ZN 3(ZN 2+) HELIX 1 1 ALA A 4 ASP A 7 5 4 HELIX 2 2 THR A 37 ASN A 52 1 16 HELIX 3 3 ALA B 4 ASP B 7 5 4 HELIX 4 4 THR B 37 ASN B 52 1 16 HELIX 5 5 ALA C 4 ASP C 7 5 4 HELIX 6 6 THR C 37 ASN C 52 1 16 SHEET 1 A 2 GLU A 9 ALA A 11 0 SHEET 2 A 2 VAL A 34 LEU A 36 -1 O ILE A 35 N VAL A 10 SHEET 1 B 2 GLU B 9 ALA B 11 0 SHEET 2 B 2 VAL B 34 LEU B 36 -1 O ILE B 35 N VAL B 10 SHEET 1 C 2 GLU B 20 ILE B 21 0 SHEET 2 C 2 THR B 24 PRO B 25 -1 O THR B 24 N ILE B 21 SHEET 1 D 2 GLU C 9 ALA C 11 0 SHEET 2 D 2 VAL C 34 LEU C 36 -1 O ILE C 35 N VAL C 10 SHEET 1 E 2 GLU C 20 ILE C 21 0 SHEET 2 E 2 THR C 24 PRO C 25 -1 O THR C 24 N ILE C 21 LINK C FME A 1 N VAL A 2 1555 1555 1.33 LINK C FME B 1 N VAL B 2 1555 1555 1.33 LINK C FME C 1 N VAL C 2 1555 1555 1.32 LINK SG CYS A 12 ZN ZN A 54 1555 1555 2.32 LINK SG CYS A 15 ZN ZN A 54 1555 1555 1.96 LINK SG CYS A 26 ZN ZN A 54 1555 1555 2.05 LINK SG CYS A 29 ZN ZN A 54 1555 1555 1.98 LINK SG CYS B 12 ZN ZN B 54 1555 1555 2.32 LINK SG CYS B 15 ZN ZN B 54 1555 1555 1.99 LINK SG CYS B 26 ZN ZN B 54 1555 1555 2.06 LINK SG CYS B 29 ZN ZN B 54 1555 1555 2.00 LINK SG CYS C 12 ZN ZN C 54 1555 1555 2.33 LINK SG CYS C 15 ZN ZN C 54 1555 1555 2.06 LINK SG CYS C 26 ZN ZN C 54 1555 1555 2.09 LINK SG CYS C 29 ZN ZN C 54 1555 1555 2.20 SITE 1 AC1 4 CYS A 12 CYS A 15 CYS A 26 CYS A 29 SITE 1 AC2 4 CYS B 12 CYS B 15 CYS B 26 CYS B 29 SITE 1 AC3 4 CYS C 12 CYS C 15 CYS C 26 CYS C 29 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 HETATM 1 N FME A 1 1.578 -11.810 13.507 1.00 0.00 N HETATM 2 CN FME A 1 2.725 -11.176 13.689 1.00 0.00 C HETATM 3 O1 FME A 1 3.645 -11.671 14.335 1.00 0.00 O HETATM 4 CA FME A 1 0.507 -11.207 12.730 1.00 0.00 C HETATM 5 CB FME A 1 -0.260 -12.286 11.962 1.00 0.00 C HETATM 6 CG FME A 1 -1.200 -11.733 10.902 1.00 0.00 C HETATM 7 SD FME A 1 -1.982 -13.031 9.924 1.00 0.00 S HETATM 8 CE FME A 1 -2.754 -12.056 8.633 1.00 0.00 C HETATM 9 C FME A 1 -0.435 -10.438 13.649 1.00 0.00 C HETATM 10 O FME A 1 -1.301 -11.021 14.298 1.00 0.00 O HETATM 11 H1 FME A 1 1.353 -12.552 14.110 1.00 0.00 H HETATM 12 HCN FME A 1 2.778 -10.193 13.221 1.00 0.00 H HETATM 13 HA FME A 1 0.951 -10.519 12.026 1.00 0.00 H HETATM 14 HB2 FME A 1 0.449 -12.940 11.477 1.00 0.00 H HETATM 15 HB3 FME A 1 -0.844 -12.863 12.664 1.00 0.00 H HETATM 16 HG2 FME A 1 -1.972 -11.157 11.390 1.00 0.00 H HETATM 17 HG3 FME A 1 -0.637 -11.092 10.241 1.00 0.00 H HETATM 18 HE1 FME A 1 -1.992 -11.518 8.080 1.00 0.00 H HETATM 19 HE2 FME A 1 -3.442 -11.352 9.077 1.00 0.00 H HETATM 20 HE3 FME A 1 -3.292 -12.710 7.962 1.00 0.00 H