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(-) Description

Title :  CRYSTAL STRUCTURE OF A HYPOTHETICAL PROTEIN JW0805 AT HIGH PH FROM ESCHERICHIA COLI
 
Authors :  Ihsanawati, K. Murayama, Y. Bessho, M. Shirouzu, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  15 Dec 05  (Deposition) - 15 Jun 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Alpha/Beta Structure, Hypothetical Protein, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Ihsanawati, K. Murayama, Y. Bessho, M. Shirouzu, S. Yokoyama
Crystal Structure Of A Hypothetical Protein Jw0805 At High Ph From Escherichia Coli
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN YBIU
    Chains: A
    Engineered: YES
    Expression System: CELL FREE SYNTHESIS
    Expression System Plasmid: PX050510-04
    Expression System Vector Type: PLASMID
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Other Details: CELL-FREE PROTEIN SYNTHESIS
    Synonym: HYPOTHETICAL PROTEIN JW0805

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1SO43Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:20 , HIS A:23 , ARG A:112 , GLU A:401 , GLY A:402 , HOH A:737 , HOH A:1099 , HOH A:1184 , HOH A:1315 , HOH A:1364BINDING SITE FOR RESIDUE SO4 A 701
2AC2SOFTWAREARG A:96 , SER A:267 , ASP A:268 , HOH A:753 , HOH A:821 , HOH A:1185BINDING SITE FOR RESIDUE SO4 A 702
3AC3SOFTWARELEU A:200 , HOH A:704 , HOH A:876 , HOH A:1077BINDING SITE FOR RESIDUE SO4 A 703

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2DBN)

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 2DBN)

(-) 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:403
 aligned with YBIU_ECOLI | P75791 from UniProtKB/Swiss-Prot  Length:421

    Alignment length:420
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420
           YBIU_ECOLI     1 MASTFTSDTLPADHKAAIRQMKHALRAQLGDVQQIFNQLSDDIATRVAEINALKAQGDAVWPVLSYADIKAGHVTAEQREQIKRRGCAVIKGHFPREQALGWDQSMLDYLDRNRFDEVYKGPGDNFFGTLSASRPEIYPIYWSQAQMQARQSEEMANAQSFLNRLWTFESDGKQWFNPDVSVIYPDRIRRRPPGTTSKGLGAHTDSGALERWLLPAYQRVFANVFNGNLAQYDPWHAAHRTEVEEYTVDNTTKCSVFRTFQGWTALSDMLPGQGLLHVVPIPEAMAYVLLRPLLDDVPEDELCGVAPGRVLPVSEQWHPLLIEALTSIPKLEAGDSVWWHCDVIHSVAPVENQQGWGNVMYIPAAPMCEKNLAYAHKVKAALEKGASPGDFPREDYETNWEGRFTLADLNIHGKRALGMD 420
               SCOP domains d2dbna_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains 2dbnA00 A:1-420 B-lactam Antibiotic, Isopenicillin N Synthase; Chain                                                                                                                                                                                                                                                                                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeehhhhhhh..hhhhhhhhhhhheeeee...hhhhhhhhhhhhhhhhhhhhhhhhh--------------..eee....hhhhhhhhhhhhhhhhhhhhhh....ee..ee..eeeee......eee.........eeeee....hhhhhhhhhhhhhhhhhh.hhhhh......hhhhh......---.......eeeeee..........eee....hhhhhhhhhhhh................ee.....hhhhhh..ee........eeeee....eee...........eee....eehhhhhhhhhhhhhhhhhh.........hhhhhh....hhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2dbn A   1 MASTFTSDTLPADHKAAIRQMKHALRAQLGDVQQIFNQLSDDIATRVAEINALKAQGDAVWPVLSYADIKAGHVTAEQREQIKRRGCAVIKGHFPREQALGWDQSMLDYLDRNRFDEVY--------------RPEIYPIYWSQAQMQARQSEEMANAQSFLNRLWTFESDGKQWFNPDVSVIYPDRIRRRPPGTTSKGLGAHTDSGALERWLLPAYQRVFANVFNGNLAQYDPWHAAHRTEVEEYTVD---KCSVFRTFQGWTALSDMLPGQGLLHVVPIPEAMAYVLLRPLLDDVPEDELCGVAPGRVLPVSEQWHPLLIEALTSIPKLEAGDSVWWHCDVIHSVAPVENQQGWGNVMYIPAAPMCEKNLAYAHKVKAALEKGASPGDFPREDYETNWEGRFTLADLNIHGKRALGMD 420
                                    10        20        30        40        50        60        70        80        90       100       110        |-         -   |   140       150       160       170       180       190       200       210       220       230       240        |-  |    260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420
                                                                                                                                                119            134                                                                                                                249 253
   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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2DBN)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2DBN)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        YBIU_ECOLI | P75791: 2dbi

(-) Related Entries Specified in the PDB File

2dbi THE SAME PROTEIN AT LOW PH PREPARATION RELATED ID: ECO002000805.2 RELATED DB: TARGETDB