HEADER SIGNALING PROTEIN 25-JUN-17 5OAY TITLE M. TUBERCULOSIS [4FE-4S] PROTEIN WHIB1 IS A FOUR-HELIX BUNDLE THAT TITLE 2 FORMS A NO-SENSITIVE COMPLEX WITH SIGMAA AND REGULATES THE MAJOR TITLE 3 VIRULENCE FACTOR ESX-1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTIONAL REGULATOR WHIB1; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: THE SEQUENCE PROVIDED BEGINS 9 RESIDUES BEFORE THE COMPND 6 START OF THE FOLDED PROTEIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS (STRAIN ATCC 25618 / SOURCE 3 H37RV); SOURCE 4 ORGANISM_TAXID: 83332; SOURCE 5 GENE: WHIB1, RV3219; SOURCE 6 EXPRESSION_SYSTEM: MYCOBACTERIUM SMEGMATIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 1772 KEYWDS NITRIC OXIDE, SIGMAA, IRON-SULFUR, TUBERCULOSIS, WBL PROTEIN, KEYWDS 2 SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR M.P.WILLIAMSON,J.GREEN,A.M.HOUNSLOW REVDAT 2 10-JAN-18 5OAY 1 ATOM REVDAT 1 03-JAN-18 5OAY 0 JRNL AUTH B.K.KUDHAIR,A.M.HOUNSLOW,M.D.ROLFE,J.C.CRACK,D.M.HUNT, JRNL AUTH 2 R.S.BUXTON,L.J.SMITH,N.E.LE BRUN,M.P.WILLIAMSON,J.GREEN JRNL TITL STRUCTURE OF A WBL PROTEIN AND IMPLICATIONS FOR NO SENSING JRNL TITL 2 BY M. TUBERCULOSIS. JRNL REF NAT COMMUN V. 8 2280 2017 JRNL REFN ESSN 2041-1723 JRNL PMID 29273788 JRNL DOI 10.1038/S41467-017-02418-Y REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5OAY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-JUN-17. REMARK 100 THE DEPOSITION ID IS D_1200005496. 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 : 300 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 25 MM SODIUM PHOSPHATE, 250 MM REMARK 210 SODIUM CHLORIDE, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCO; HN(CA)CO; 3D HNCA; 3D REMARK 210 HN(CO)CA; 3D HNCACB; 3D CBCA(CO) REMARK 210 NH; HNCA(N)NH; 3D HCCH-TOCSY; REMARK 210 HBCB(CGCD)HD REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 62 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: 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-10 REMARK 465 RES C SSSEQI REMARK 465 ALA A -9 REMARK 465 GLY A -8 REMARK 465 GLU A -7 REMARK 465 ASN A -6 REMARK 465 LEU A -5 REMARK 465 TYR A -4 REMARK 465 PHE A -3 REMARK 465 GLN A -2 REMARK 465 GLY A -1 REMARK 465 ALA A 0 REMARK 465 ARG A 77 REMARK 465 THR A 78 REMARK 465 LYS A 79 REMARK 465 ALA A 80 REMARK 465 ARG A 81 REMARK 465 THR A 82 REMARK 465 GLY A 83 REMARK 465 VAL A 84 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: 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 CYS A 9 -71.17 -51.69 REMARK 500 1 GLU A 12 -141.37 -81.82 REMARK 500 1 PRO A 41 -170.09 -50.86 REMARK 500 2 GLU A 12 -140.86 -80.90 REMARK 500 2 VAL A 42 143.24 80.29 REMARK 500 3 GLU A 12 -141.39 -81.41 REMARK 500 3 PRO A 41 -85.29 -55.98 REMARK 500 3 VAL A 42 136.11 159.11 REMARK 500 4 GLU A 12 -153.52 -81.78 REMARK 500 4 PRO A 41 127.22 -39.01 REMARK 500 5 CYS A 9 -71.65 -53.26 REMARK 500 5 GLU A 12 -143.58 -80.91 REMARK 500 6 CYS A 9 -70.05 -51.85 REMARK 500 6 GLU A 12 -136.00 -81.62 REMARK 500 6 PRO A 41 115.27 -36.76 REMARK 500 7 CYS A 9 -70.70 -50.66 REMARK 500 7 GLU A 12 -141.08 -81.88 REMARK 500 7 PRO A 41 107.61 -38.84 REMARK 500 8 CYS A 9 -71.66 -52.67 REMARK 500 8 GLU A 12 -143.62 -81.79 REMARK 500 9 GLU A 12 -156.58 -82.38 REMARK 500 9 PRO A 41 157.60 -40.42 REMARK 500 9 ASP A 56 -78.63 -67.35 REMARK 500 10 GLU A 12 -142.00 -82.49 REMARK 500 10 PRO A 41 110.80 -38.93 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 SF4 A 101 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 9 SG REMARK 620 2 SF4 A 101 S1 109.7 REMARK 620 3 SF4 A 101 S2 108.8 99.3 REMARK 620 4 SF4 A 101 S4 124.6 106.7 104.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 101 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 37 SG REMARK 620 2 SF4 A 101 S1 119.2 REMARK 620 3 SF4 A 101 S2 119.3 99.9 REMARK 620 4 SF4 A 101 S3 107.0 102.8 107.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 101 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 40 SG REMARK 620 2 SF4 A 101 S2 115.9 REMARK 620 3 SF4 A 101 S3 116.6 103.4 REMARK 620 4 SF4 A 101 S4 112.4 102.1 104.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 101 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 46 SG REMARK 620 2 SF4 A 101 S1 116.6 REMARK 620 3 SF4 A 101 S3 108.8 100.1 REMARK 620 4 SF4 A 101 S4 119.5 105.1 104.4 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 SF4 A 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34153 RELATED DB: BMRB REMARK 900 M. TUBERCULOSIS [4FE-4S] PROTEIN WHIB1 IS A FOUR-HELIX BUNDLE THAT REMARK 900 FORMS A NO-SENSITIVE COMPLEX WITH SIGMAA AND REGULATES THE MAJOR REMARK 900 VIRULENCE FACTOR ESX-1 DBREF 5OAY A 1 84 UNP P9WF43 WHIB1_MYCTU 1 84 SEQADV 5OAY ALA A -9 UNP P9WF43 EXPRESSION TAG SEQADV 5OAY GLY A -8 UNP P9WF43 EXPRESSION TAG SEQADV 5OAY GLU A -7 UNP P9WF43 EXPRESSION TAG SEQADV 5OAY ASN A -6 UNP P9WF43 EXPRESSION TAG SEQADV 5OAY LEU A -5 UNP P9WF43 EXPRESSION TAG SEQADV 5OAY TYR A -4 UNP P9WF43 EXPRESSION TAG SEQADV 5OAY PHE A -3 UNP P9WF43 EXPRESSION TAG SEQADV 5OAY GLN A -2 UNP P9WF43 EXPRESSION TAG SEQADV 5OAY GLY A -1 UNP P9WF43 EXPRESSION TAG SEQADV 5OAY ALA A 0 UNP P9WF43 EXPRESSION TAG SEQRES 1 A 94 ALA GLY GLU ASN LEU TYR PHE GLN GLY ALA MET ASP TRP SEQRES 2 A 94 ARG HIS LYS ALA VAL CYS ARG ASP GLU ASP PRO GLU LEU SEQRES 3 A 94 PHE PHE PRO VAL GLY ASN SER GLY PRO ALA LEU ALA GLN SEQRES 4 A 94 ILE ALA ASP ALA LYS LEU VAL CYS ASN ARG CYS PRO VAL SEQRES 5 A 94 THR THR GLU CYS LEU SER TRP ALA LEU ASN THR GLY GLN SEQRES 6 A 94 ASP SER GLY VAL TRP GLY GLY MET SER GLU ASP GLU ARG SEQRES 7 A 94 ARG ALA LEU LYS ARG ARG ASN ALA ARG THR LYS ALA ARG SEQRES 8 A 94 THR GLY VAL HET SF4 A 101 8 HETNAM SF4 IRON/SULFUR CLUSTER FORMUL 2 SF4 FE4 S4 HELIX 1 AA1 MET A 1 ASP A 11 1 11 HELIX 2 AA2 ASP A 13 PHE A 18 1 6 HELIX 3 AA3 GLY A 24 ARG A 39 1 16 HELIX 4 AA4 THR A 43 GLY A 54 1 12 HELIX 5 AA5 SER A 64 ALA A 76 1 13 LINK SG CYS A 9 FE3 SF4 A 101 1555 1555 2.09 LINK SG CYS A 37 FE4 SF4 A 101 1555 1555 2.26 LINK SG CYS A 40 FE1 SF4 A 101 1555 1555 2.26 LINK SG CYS A 46 FE2 SF4 A 101 1555 1555 2.27 SITE 1 AC1 10 HIS A 5 VAL A 8 CYS A 9 CYS A 37 SITE 2 AC1 10 CYS A 40 PRO A 41 THR A 43 CYS A 46 SITE 3 AC1 10 GLY A 61 GLY A 62 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