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(-) Description

Title :  CRYSTAL STRUCTURE OF A DOMAIN OF LIN1832 FROM LISTERIA INNOCUA
 
Authors :  K. Tan, E. Rakowski, G. Cobb, A. Joachimiak, Midwest Center For Stru Genomics (Mcsg)
Date :  01 Apr 09  (Deposition) - 21 Apr 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Apc63308. 2, Lin1832, Listeria Innocua, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Atp-Binding, Nucleotide-Binding, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Tan, E. Rakowski, G. Cobb, A. Joachimiak
The Crystal Structure Of A Domain Of Lin1832 From Listeria Innocua
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - LIN1832 PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG19
    Expression System Strain: PPK1037
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: LIN1832
    Organism Scientific: LISTERIA INNOCUA CLIP11262
    Organism Taxid: 272626
    Strain: CLIP11262 / SEROVAR 6A

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 26)

Asymmetric/Biological Unit (2, 26)
No.NameCountTypeFull Name
1MSE16Mod. Amino AcidSELENOMETHIONINE
2SO410Ligand/IonSULFATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:642 , LYS A:643 , ARG A:648 , ARG B:648BINDING SITE FOR RESIDUE SO4 A 702
02AC2SOFTWAREARG A:625 , LEU A:650 , GLU A:651BINDING SITE FOR RESIDUE SO4 A 704
03AC3SOFTWAREHIS A:550 , VAL A:582 , GLY A:609 , SER A:610BINDING SITE FOR RESIDUE SO4 A 707
04AC4SOFTWAREILE A:568 , GLU A:569 , SER A:570BINDING SITE FOR RESIDUE SO4 A 708
05AC5SOFTWAREARG A:648 , ARG B:648BINDING SITE FOR RESIDUE SO4 A 709
06AC6SOFTWAREARG B:625 , GLY B:649 , LEU B:650 , GLU B:651BINDING SITE FOR RESIDUE SO4 B 701
07AC7SOFTWAREARG B:642 , LYS B:643 , LEU B:646 , ARG B:648BINDING SITE FOR RESIDUE SO4 B 703
08AC8SOFTWAREASN B:540 , ILE B:568 , GLU B:569 , SER B:570BINDING SITE FOR RESIDUE SO4 B 705
09AC9SOFTWAREGLU B:587 , LYS B:590 , GLU B:620 , GLU B:621BINDING SITE FOR RESIDUE SO4 B 706
10BC1SOFTWARETYR B:586 , ILE B:617BINDING SITE FOR RESIDUE SO4 B 710

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3GX1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3GX1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3GX1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3GX1)

(-) Exons   (0, 0)

(no "Exon" information available for 3GX1)

(-) 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:126
 aligned with Q92AT7_LISIN | Q92AT7 from UniProtKB/TrEMBL  Length:892

    Alignment length:126
                                   548       558       568       578       588       598       608       618       628       638       648       658      
         Q92AT7_LISIN   539 QENQVEVIVMMHGRSTATSMVETVQELLSIESGIALDMPLTVEVKAMYEKLKQTVVKLNPVKGVLILSDMGSLTSFGNILTEELGIRTKTVTMVSTPVVLEAMRKASLGRGLEDIYQSCEQLFENK 664
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 3gx1A00 A:539-664  [code=3.40.50.510, no name defined]                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eeeeeee..hhhhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhhh......eeeee.hhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3gx1 A 539 SNAQVEVIVmmHGRSTATSmVETVQELLSIESGIALDmPLTVEVKAmYEKLKQTVVKLNPVKGVLILSDmGSLTSFGNILTEELGIRTKTVTmVSTPVVLEAmRKASLGRGLEDIYQSCEQLFENK 664
                                   548|      558       568       578      |588       598       608       618       628  |    638  |    648       658      
                                   548-MSE   558-MSE           576-MSE  585-MSE                608-MSE                631-MSE   641-MSE                   
                                    549-MSE                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:126
 aligned with Q92AT7_LISIN | Q92AT7 from UniProtKB/TrEMBL  Length:892

    Alignment length:126
                                   549       559       569       579       589       599       609       619       629       639       649       659      
         Q92AT7_LISIN   540 ENQVEVIVMMHGRSTATSMVETVQELLSIESGIALDMPLTVEVKAMYEKLKQTVVKLNPVKGVLILSDMGSLTSFGNILTEELGIRTKTVTMVSTPVVLEAMRKASLGRGLEDIYQSCEQLFENKY 665
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 3gx1B00 B:540-665  [code=3.40.50.510, no name defined]                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....eeeeeee..hhhhhhhhhhhhhhh....eeeee....hhhhhhhhhhhhhhhhh....eeeee...hhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3gx1 B 540 NAQVEVIVmmHGRSTATSmVETVQELLSIESGIALDmPLTVEVKAmYEKLKQTVVKLNPVKGVLILSDmGSLTSFGNILTEELGIRTKTVTmVSTPVVLEAmRKASLGRGLEDIYQSCEQLFENKY 665
                                   549       559       569      |579     | 589       599       609       619       629 |     639 |     649       659      
                                  548-MSE   558-MSE           576-MSE  585-MSE                608-MSE                631-MSE   641-MSE                    
                                   549-MSE
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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 3GX1)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3GX1)

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q92AT7_LISIN | Q92AT7)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0008134    transcription factor binding    Interacting selectively and non-covalently with a transcription factor, any protein required to initiate or regulate transcription.
biological process
    GO:0009401    phosphoenolpyruvate-dependent sugar phosphotransferase system    The uptake and phosphorylation of specific carbohydrates from the extracellular environment; uptake and phosphorylation are coupled, making the PTS a link between the uptake and metabolism of sugars; phosphoenolpyruvate is the original phosphate donor; phosphoenolpyruvate passes the phosphate via a signal transduction pathway, to enzyme 1 (E1), which in turn passes it on to the histidine protein, HPr; the next step in the system involves sugar-specific membrane-bound complex, enzyme 2 (EII), which transports the sugar into the cell; it includes the sugar permease, which catalyzes the transport reactions; EII is usually divided into three different domains, EIIA, EIIB, and EIIC.
    GO:0006355    regulation of transcription, DNA-templated    Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
cellular component
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.

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