HEADER TRANSPORT PROTEIN 14-MAY-21 7MU9 TITLE SOLUTION NMR STRUCTURE OF THE XVIPCD REGION FROM THE T4SS EFFECTOR X- TITLE 2 TFE(XAC2609) FROM XANTHOMONAS CITRI COMPND MOL_ID: 1; COMPND 2 MOLECULE: VIRD4 INTERACTING PROTEIN CONSERVED DOMAIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CARBOXYPEPTIDASE, VIPCD; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: XANTHOMONAS AXONOPODIS PV. CITRI (STRAIN 306); SOURCE 3 ORGANISM_TAXID: 190486; SOURCE 4 STRAIN: 306; SOURCE 5 GENE: XAC2609; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: RP; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS BACTERIAL TOXIN, BACTERIAL COMPETITION, TYPE IV SECRETION SYSTEM, KEYWDS 2 VIRD4 BINDING MODULE, TRANSPORT PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR G.U.OKA,R.K.SALINAS,C.S.FARAH REVDAT 3 15-MAY-24 7MU9 1 REMARK REVDAT 2 19-JAN-22 7MU9 1 JRNL REVDAT 1 22-DEC-21 7MU9 0 JRNL AUTH G.U.OKA,D.P.SOUZA,W.CENENS,B.Y.MATSUYAMA,M.V.C.CARDOSO, JRNL AUTH 2 L.C.OLIVEIRA,F.DA SILVA LIMA,I.M.CUCCOVIA,C.R.GUZZO, JRNL AUTH 3 R.K.SALINAS,C.S.FARAH JRNL TITL STRUCTURAL BASIS FOR EFFECTOR RECOGNITION BY AN JRNL TITL 2 ANTIBACTERIAL TYPE IV SECRETION SYSTEM. JRNL REF PROC.NATL.ACAD.SCI.USA V. 119 2022 JRNL REFN ESSN 1091-6490 JRNL PMID 34983846 JRNL DOI 10.1073/PNAS.2112529119 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER A. T. ET.AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7MU9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-MAY-21. REMARK 100 THE DEPOSITION ID IS D_1000256276. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 8.0 REMARK 210 IONIC STRENGTH : 100 MM NACL REMARK 210 PRESSURE : 1016 MBAR REMARK 210 SAMPLE CONTENTS : 1.5 MM [U-100% 13C; U-100% 15N] REMARK 210 XAC2609(311-411), 20 MM TRIS, REMARK 210 100 MM SODIUM CHLORIDE, 0.1 % V/ REMARK 210 V GLYCEROL, 0.05 % W/V SODIUM REMARK 210 AZIDE, 93% H2O/7% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCACB; 3D CBCA(CO)NH; 3D REMARK 210 HN(CO)CA; 3D HNCO; HN(CA)CO; 3D- REMARK 210 (H)CCH; 3D-H(C)CH; 3D HCCH-TOCSY; REMARK 210 3D 15N NOESY-HSQC; 3D 13C NOESY- REMARK 210 HSQC; 2D 1H-1H NOESY; 2D REMARK 210 AROMATIC 13C NOESY-HSQC; 3D (D2O) REMARK 210 H(C)CH-TOCSY; 3D (D2O) (H)CCH- REMARK 210 TOCSY; 3D (D2O) 13C NOESY-HSQC; REMARK 210 3D (D2) 15N NOESY-HSQC; 2D 1H- REMARK 210 13C HSQC; 2D 1H-15N HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ARIA, CCPNMR ANALYSIS 2.3 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 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: 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 HD1 HIS A 9 OD1 ASP A 11 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 PRO A 10 7.29 -69.40 REMARK 500 1 GLN A 89 -93.03 42.94 REMARK 500 1 ALA A 90 -167.73 63.58 REMARK 500 1 ASN A 92 -66.13 -170.27 REMARK 500 1 PRO A 94 84.13 -68.15 REMARK 500 1 ASN A 97 89.83 -165.09 REMARK 500 1 ARG A 100 27.21 -146.15 REMARK 500 2 ASN A 92 -68.31 -138.12 REMARK 500 2 PRO A 94 93.01 -69.18 REMARK 500 2 LEU A 95 -54.39 72.70 REMARK 500 2 ARG A 100 47.80 -92.24 REMARK 500 2 ALA A 102 -72.32 66.57 REMARK 500 2 ALA A 103 97.85 -172.98 REMARK 500 3 ASN A 88 35.14 -145.21 REMARK 500 3 ASN A 92 -111.04 -124.42 REMARK 500 3 ASN A 97 94.32 61.96 REMARK 500 4 HIS A 3 -5.78 -156.91 REMARK 500 4 ASN A 88 18.09 -161.95 REMARK 500 4 GLN A 89 76.37 67.65 REMARK 500 4 GLN A 91 109.35 -57.67 REMARK 500 4 GLN A 93 105.84 179.54 REMARK 500 4 PRO A 94 69.28 -67.10 REMARK 500 4 LEU A 95 138.79 70.73 REMARK 500 4 SER A 98 -41.78 71.36 REMARK 500 5 ASN A 92 -80.42 -156.85 REMARK 500 5 GLN A 93 -50.54 -125.75 REMARK 500 5 LEU A 95 -165.30 57.68 REMARK 500 5 ALA A 102 -73.10 67.66 REMARK 500 5 ALA A 103 47.99 -81.47 REMARK 500 6 GLN A 91 -71.61 -164.53 REMARK 500 6 ASN A 92 -94.61 -115.94 REMARK 500 6 ASN A 97 54.67 -168.21 REMARK 500 7 HIS A 3 41.05 -143.10 REMARK 500 7 ARG A 55 136.43 -175.15 REMARK 500 7 ALA A 90 99.87 -161.55 REMARK 500 7 ASN A 92 78.98 172.48 REMARK 500 7 GLN A 93 111.07 73.86 REMARK 500 7 ASN A 97 72.06 57.48 REMARK 500 7 SER A 99 51.82 -145.03 REMARK 500 7 ARG A 100 -71.70 -80.74 REMARK 500 7 GLN A 101 71.22 46.96 REMARK 500 7 ALA A 102 47.58 -95.16 REMARK 500 7 ALA A 103 -175.67 63.84 REMARK 500 8 SER A 2 -91.50 60.66 REMARK 500 8 HIS A 3 28.62 -146.23 REMARK 500 8 ARG A 55 141.74 -172.97 REMARK 500 8 GLN A 89 49.64 39.02 REMARK 500 8 ASN A 92 -84.69 -164.59 REMARK 500 8 LEU A 95 -175.28 63.30 REMARK 500 8 ALA A 102 46.62 -92.96 REMARK 500 REMARK 500 THIS ENTRY HAS 128 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30908 RELATED DB: BMRB REMARK 900 SOLUTION NMR STRUCTURE OF THE XVIPCD REGION FROM THE T4SS EFFECTOR REMARK 900 X-TFE(XAC2609) FROM XANTHOMONAS CITRI DBREF 7MU9 A 5 105 UNP Q8PJC6 Q8PJC6_XANAC 311 411 SEQADV 7MU9 GLY A 1 UNP Q8PJC6 EXPRESSION TAG SEQADV 7MU9 SER A 2 UNP Q8PJC6 EXPRESSION TAG SEQADV 7MU9 HIS A 3 UNP Q8PJC6 EXPRESSION TAG SEQADV 7MU9 MET A 4 UNP Q8PJC6 EXPRESSION TAG SEQRES 1 A 105 GLY SER HIS MET SER ASP PRO ARG HIS PRO ASP ASN ALA SEQRES 2 A 105 MET TYR ASN GLY ALA VAL SER LYS LEU GLU ALA LEU GLY SEQRES 3 A 105 GLU ARG GLY GLY PHE ALA ASN ARG LYS GLU LEU GLU GLN SEQRES 4 A 105 ALA ALA GLY GLN ILE VAL PHE GLU SER LYS VAL SER GLY SEQRES 5 A 105 LEU GLN ARG ILE ASP HIS VAL VAL PRO ASN LYS SER GLY SEQRES 6 A 105 ASP GLY PHE PHE ALA VAL GLN GLY GLU LEU THR ASP PRO SEQRES 7 A 105 ALA MET GLN ARG VAL PHE VAL ASP ARG ASN GLN ALA GLN SEQRES 8 A 105 ASN GLN PRO LEU GLU ASN SER SER ARG GLN ALA ALA GLU SEQRES 9 A 105 GLU HELIX 1 AA1 PRO A 10 GLY A 26 1 17 HELIX 2 AA2 GLU A 27 GLY A 30 5 4 HELIX 3 AA3 ASN A 33 GLY A 52 1 20 SHEET 1 AA1 3 HIS A 58 PRO A 61 0 SHEET 2 AA1 3 GLY A 67 GLN A 72 -1 O PHE A 69 N VAL A 60 SHEET 3 AA1 3 GLN A 81 ASP A 86 -1 O VAL A 85 N PHE A 68 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