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(-) Description

Title :  ARDB
 
Authors :  N. D. Weikart, G. Roberts, K. A. Johnson, M. Oke, L. P. Cooper, S. A. Mcmah J. H. White, H. Liu, L. G. Carter, M. D. Walkinshaw, G. W. Blakely, J. H. N D. T. F. Dryden
Date :  25 May 09  (Deposition) - 18 Aug 10  (Release) - 18 Aug 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.62
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Antirestriction, Hydrolase Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Oke, L. G. Carter, K. A. Johnson, H. Liu, S. A. Mcmahon, X. Yan, M. Kerou, N. D. Weikart, N. Kadi, M. A. Sheikh, S. Schmelz, M. Dorward, M. Zawadzki, C. Cozens, H. Falconer, H. Powers, I. M. Overton, C. A. J. Van Niekerk, X. Peng, P. Patel, R. A. Garrett, D. Prangishvili C, H. Botting, P. J. Coote, D. T. F. Dryden, G. J. Barton, U. Schwarz-Linek, G. L. Challis, G. L. Taylor, M. F. White J. H. Naismith
The Scottish Structural Proteomics Facility: Targets, Methods And Outputs.
J. Struct. Funct. Genomics V. 11 167 2010
PubMed-ID: 20419351  |  Reference-DOI: 10.1007/S10969-010-9090-Y

(-) Compounds

Molecule 1 - INTERGENIC-REGION PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Strain: CFT073
    Synonym: ARDB

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 11)

Asymmetric/Biological Unit (4, 11)
No.NameCountTypeFull Name
1BME5Ligand/IonBETA-MERCAPTOETHANOL
2CL1Ligand/IonCHLORIDE ION
3MPD3Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
4SO42Ligand/IonSULFATE ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG B:52 , ARG B:59 , HOH B:2096 , HOH B:2097 , HOH B:2098BINDING SITE FOR RESIDUE SO4 B1158
02AC2SOFTWAREARG B:52 , ARG B:126BINDING SITE FOR RESIDUE SO4 A1162
03AC3SOFTWARETRP B:36 , TRP B:46 , VAL B:47 , LEU B:49 , GLU B:50 , HOH B:2038BINDING SITE FOR RESIDUE CL B1163
04AC4SOFTWARECYS A:149 , SER A:150 , MET A:153 , GLU B:50 , HOH B:2027BINDING SITE FOR RESIDUE BME A1158
05AC5SOFTWARELEU B:144 , CYS B:149 , SER B:150BINDING SITE FOR RESIDUE BME B1159
06AC6SOFTWAREGLY B:41 , LEU B:42 , ILE B:43 , PRO B:44 , TRP B:46 , PRO B:147 , BME B:1162 , HOH B:2001 , HOH B:2084BINDING SITE FOR RESIDUE MPD B1160
07AC7SOFTWAREARG A:103 , ARG A:154 , PHE B:54 , MET B:57 , ASP B:58 , GLY B:66 , TRP B:69 , HOH B:2046BINDING SITE FOR RESIDUE MPD A1159
08AC8SOFTWARELEU A:144 , GLY B:18 , LEU B:19 , GLN B:20 , VAL B:47 , ASP B:141 , GLN B:145 , HOH B:2099BINDING SITE FOR RESIDUE MPD B1161
09AC9SOFTWARETHR A:127 , GLU A:128 , CYS A:129 , BME A:1161BINDING SITE FOR RESIDUE BME A1160
10BC1SOFTWARECYS A:129 , TYR A:130 , ALA A:131 , BME A:1160 , HOH B:2074BINDING SITE FOR RESIDUE BME A1161
11BC2SOFTWARECYS B:129 , MPD B:1160 , HOH B:2100BINDING SITE FOR RESIDUE BME B1162

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:13 -B:125
2A:61 -A:65
3A:125 -B:13
4B:61 -B:65

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2WJ9)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2WJ9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2WJ9)

(-) Exons   (0, 0)

(no "Exon" information available for 2WJ9)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:138
 aligned with Q8VRA1_ECOLX | Q8VRA1 from UniProtKB/TrEMBL  Length:157

    Alignment length:149
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148         
         Q8VRA1_ECOLX     9 TSSACAPETGLQQLVATIVPDEQRISFWPQHFGLIPQWVTLEPRVFGWMDRLCENYCGGIWNLYTLNNGGAFMAPEPDDDDDETWVLFNAMNGNRAEMSPEAAGIAACLMTYSHHACRTECYAMTVHYYRLRDYALQHPECSAIMRIID 157
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............eee.hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh---.--.eeeeee....eeeee.------..eeee......eeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wj9 A   9 TSSACAPETGLQQLVATIVPDEQRISFWPQHFGLIPQWVTLEPRVFGWMDRLC---C--IWNLYTLNNGGAFMAPE------ETWVLFNAMNGNRAEMSPEAAGIAACLMTYSHHACRTECYAMTVHYYRLRDYALQHPECSAIMRIID 157
                                    18        28        38        48        58  |   | 68        78     |   -  |     98       108       118       128       138       148         
                                                                               61  65 68              84     91                                                                  


Chain B from PDB  Type:PROTEIN  Length:145
 aligned with Q8VRA1_ECOLX | Q8VRA1 from UniProtKB/TrEMBL  Length:157

    Alignment length:150
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157
         Q8VRA1_ECOLX     8 TTSSACAPETGLQQLVATIVPDEQRISFWPQHFGLIPQWVTLEPRVFGWMDRLCENYCGGIWNLYTLNNGGAFMAPEPDDDDDETWVLFNAMNGNRAEMSPEAAGIAACLMTYSHHACRTECYAMTVHYYRLRDYALQHPECSAIMRIID 157
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) ----------------------------------------------------Antirestrict-2wj9B01 B:60-     157                                                                 Pfam domains (1)
           Pfam domains (2) ----------------------------------------------------Antirestrict-2wj9B02 B:60-     157                                                                 Pfam domains (2)
         Sec.struct. author ................eee.hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.......eeeeee....eeeee..-----..eeeee....eeeeehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2wj9 B   8 TTSSACAPETGLQQLVATIVPDEQRISFWPQHFGLIPQWVTLEPRVFGWMDRLCENYCGGIWNLYTLNNGGAFMAPEP-----ETWVLFNAMNGNRAEMSPEAAGIAACLMTYSHHACRTECYAMTVHYYRLRDYALQHPECSAIMRIID 157
                                    17        27        37        47        57        67        77       | -   |    97       107       117       127       137       147       157
                                                                                                        85    91
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 2WJ9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2WJ9)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: Antirestrict] (1)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q8VRA1_ECOLX | Q8VRA1)
molecular function
    GO:0004519    endonuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids by creating internal breaks.
biological process
    GO:0090305    nucleic acid phosphodiester bond hydrolysis    The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.

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