HEADER PROTEIN TRANSPORT 15-OCT-10 2L4W TITLE NMR STRUCTURE OF THE XANTHOMONAS VIRB7 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: VIRB7-XAC2622, UNP RESIDUES 24-139; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: XANTHOMONAS AXONOPODIS PV. CITRI; SOURCE 3 ORGANISM_COMMON: CITRUS CANKER; SOURCE 4 ORGANISM_TAXID: 190486; SOURCE 5 STRAIN: 306; SOURCE 6 GENE: XAC2622; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)RP; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET28A KEYWDS TYPE IV SECRETION SYSTEM, VIRB7, N0 DOMAIN, MEMBRANE PROTEIN, KEYWDS 2 XANTHOMONAS, LIPOPROTEIN, BACTERIAL OUTER MEMBRANE, PROTEIN KEYWDS 3 TRANSPORT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR D.P.SOUZA,C.S.FARAH,R.K.SALINAS REVDAT 2 01-MAY-24 2L4W 1 REMARK SEQADV REVDAT 1 01-JUN-11 2L4W 0 JRNL AUTH D.P.SOUZA,M.O.ANDRADE,C.E.ALVAREZ-MARTINEZ,G.M.ARANTES, JRNL AUTH 2 C.S.FARAH,R.K.SALINAS JRNL TITL A COMPONENT OF THE XANTHOMONADACEAE TYPE IV SECRETION SYSTEM JRNL TITL 2 COMBINES A VIRB7 MOTIF WITH A N0 DOMAIN FOUND IN OUTER JRNL TITL 3 MEMBRANE TRANSPORT PROTEINS. JRNL REF PLOS PATHOG. V. 7 02031 2011 JRNL REFN ISSN 1553-7366 JRNL PMID 21589901 JRNL DOI 10.1371/JOURNAL.PPAT.1002031 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE 97.027.12.56, HADDOCK 2.0, CNS 1.2 REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), CYRIL DOMINGUEZ, ROLF BOELENS AND REMARK 3 ALEXANDRE M.J.J. BONVIN (HADDOCK), BRUNGER, ADAMS, REMARK 3 CLORE, GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 300 STRUCTURES WERE CALCULATED USING REMARK 3 THE PROGRAM CYANA. 50 STRUCTURES WITH LOWEST TARGET FUNCTION REMARK 3 WERE SELECTED FOR FURTHER REFINEMENT., 50 CYANA STRUCTURES WERE REMARK 3 REFINED IN EXPLICIT SOLVENT USING THE HADDOCK PROGRAM. 20 LOWEST REMARK 3 ENERGY STRUCTURES WERE SELECTED. REMARK 4 REMARK 4 2L4W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-OCT-10. REMARK 100 THE DEPOSITION ID IS D_1000101960. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 313; 303 REMARK 210 PH : 5.0; 5.0 REMARK 210 IONIC STRENGTH : 0.06; 0.06 REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 0.2 MM [U-99% 13C; U-99% 15N] REMARK 210 VIRB7 - XAC2622-1, 10 MM [U-99% REMARK 210 2H] SODIUM ACETATE-2, 50 MM REMARK 210 SODIUM CHLORIDE-3, 93% H2O/7% REMARK 210 D2O; 0.2 MM [U-99% 13C; U-99% REMARK 210 15N] VIRB7 - XAC2622-4, 10 MM [U- REMARK 210 99% 2H] SODIUM ACETATE-5, 50 MM REMARK 210 SODIUM CHLORIDE-6, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-1H TOCSY; 2D 1H-1H NOESY; REMARK 210 3D HNCO; 3D HN(CA)CO; 3D HNCA; REMARK 210 3D HN(CO)CA; 3D HNCACB; 3D REMARK 210 CBCA(CO)NH; 3D C(CO)NH; 3D REMARK 210 HBHA(CO)NH; 3D H(CCO)NH; 3D HCCH- REMARK 210 TOCSY; 3D HNHA; 3D 1H-15N NOESY; REMARK 210 3D 1H-15N TOCSY; 3D 1H-13C NOESY; REMARK 210 2D 1H-15N HSQC J-MODULATED REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : DRX; INOVA; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CCPNMR ANALYSIS VERSION 1.0. REMARK 210 RELEASE 15, TALOS, CYANA 2.1, REMARK 210 PALES 2.1, MODULE 2 2, NMRDRAW REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 SIMULATED ANNEALING CARTESIAN REMARK 210 DYNAMICS 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: 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 HZ2 LYS A 65 OE2 GLU A 69 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 2 LYS A 25 134.77 68.67 REMARK 500 2 TRP A 34 80.41 59.57 REMARK 500 3 MET A 23 -78.45 -76.48 REMARK 500 4 ARG A 33 -167.88 -78.92 REMARK 500 4 PRO A 92 -2.13 -59.33 REMARK 500 4 VAL A 133 28.11 -145.66 REMARK 500 5 ASP A 29 -164.58 -112.15 REMARK 500 5 PHE A 30 34.45 -97.88 REMARK 500 5 PRO A 44 94.99 -67.69 REMARK 500 5 THR A 51 107.57 -55.42 REMARK 500 5 PRO A 92 -2.93 -58.71 REMARK 500 6 ALA A 27 156.11 70.86 REMARK 500 6 PHE A 40 -76.45 -75.72 REMARK 500 6 ASN A 82 48.44 -107.19 REMARK 500 6 PRO A 92 6.78 -68.16 REMARK 500 6 ALA A 137 -51.44 -148.52 REMARK 500 7 HIS A 22 70.12 -100.62 REMARK 500 7 PRO A 44 93.30 -61.76 REMARK 500 7 PRO A 92 5.14 -65.92 REMARK 500 8 THR A 24 149.55 -173.57 REMARK 500 8 ALA A 27 156.82 68.59 REMARK 500 8 LEU A 49 79.43 -112.75 REMARK 500 8 SER A 134 44.40 -152.51 REMARK 500 9 HIS A 39 -34.80 -147.66 REMARK 500 9 PHE A 40 55.05 -153.95 REMARK 500 10 THR A 51 105.52 -58.75 REMARK 500 10 ALA A 123 -89.61 64.57 REMARK 500 11 PRO A 28 36.56 -80.81 REMARK 500 11 PHE A 30 76.78 -151.99 REMARK 500 11 LYS A 35 81.67 -153.80 REMARK 500 11 HIS A 39 87.66 -151.93 REMARK 500 11 PHE A 40 75.09 -153.94 REMARK 500 11 PRO A 44 103.43 -57.89 REMARK 500 11 LEU A 49 71.58 -109.81 REMARK 500 12 GLU A 46 79.02 -117.06 REMARK 500 14 PRO A 28 -158.86 -72.87 REMARK 500 14 ASN A 38 8.25 -150.56 REMARK 500 14 PRO A 44 96.65 -60.32 REMARK 500 15 LYS A 25 77.26 56.63 REMARK 500 15 THR A 51 109.15 -57.58 REMARK 500 16 PHE A 40 60.08 -105.38 REMARK 500 16 PRO A 92 -7.28 -58.17 REMARK 500 16 SER A 134 55.00 -159.13 REMARK 500 17 HIS A 39 -70.06 -74.48 REMARK 500 17 THR A 45 79.66 -150.90 REMARK 500 17 LEU A 89 109.18 -58.36 REMARK 500 18 HIS A 22 96.95 -160.12 REMARK 500 18 THR A 45 87.82 -154.18 REMARK 500 18 GLU A 46 73.06 -102.58 REMARK 500 18 PRO A 92 0.91 -65.36 REMARK 500 REMARK 500 THIS ENTRY HAS 56 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3OV5 RELATED DB: PDB REMARK 900 ENTRY CONTAINING THE X-RAY CRYSTAL STRUCTURE FOR THE XAC2622 REMARK 900 GLOBULAR DOMAIN REMARK 900 RELATED ID: 17257 RELATED DB: BMRB DBREF 2L4W A 24 139 UNP Q8PJB3 Q8PJB3_XANAC 24 139 SEQADV 2L4W GLY A 20 UNP Q8PJB3 EXPRESSION TAG SEQADV 2L4W SER A 21 UNP Q8PJB3 EXPRESSION TAG SEQADV 2L4W HIS A 22 UNP Q8PJB3 EXPRESSION TAG SEQADV 2L4W MET A 23 UNP Q8PJB3 EXPRESSION TAG SEQRES 1 A 120 GLY SER HIS MET THR LYS PRO ALA PRO ASP PHE GLY GLY SEQRES 2 A 120 ARG TRP LYS HIS VAL ASN HIS PHE ASP GLU ALA PRO THR SEQRES 3 A 120 GLU ILE PRO LEU TYR THR SER TYR THR TYR GLN ALA THR SEQRES 4 A 120 PRO MET ASP GLY THR LEU LYS THR MET LEU GLU ARG TRP SEQRES 5 A 120 ALA ALA ASP SER ASN MET GLN LEU SER TYR ASN LEU PRO SEQRES 6 A 120 SER ASP TYR THR LEU ILE GLY PRO VAL SER ALA ILE SER SEQRES 7 A 120 THR THR SER VAL GLN GLN ALA ALA THR GLU LEU SER ALA SEQRES 8 A 120 VAL TYR ALA ALA GLN GLY VAL SER VAL SER VAL SER ALA SEQRES 9 A 120 ASN LYS LEU LEU VAL GLN PRO VAL PRO VAL SER SER GLY SEQRES 10 A 120 ALA LYS LEU HELIX 1 1 THR A 63 SER A 75 1 13 HELIX 2 2 SER A 100 ALA A 113 1 14 SHEET 1 A 3 GLN A 78 TYR A 81 0 SHEET 2 A 3 LYS A 125 PRO A 130 1 O LEU A 126 N SER A 80 SHEET 3 A 3 VAL A 117 VAL A 121 -1 N SER A 120 O LEU A 127 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