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(-) Description

Title :  CRYSTAL STRUCTURE OF TRUNCATED SE-MET HYPOXIC RESPONSE PROTEIN I (HRPI)
 
Authors :  M. L. Sharpe, E. N. Baker, J. S. Lott
Date :  02 Dec 04  (Deposition) - 15 Nov 05  (Release) - 10 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Cbs Domain, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. L. Sharpe, C. Gao, S. L. Kendall, E. N. Baker, J. S. Lott
The Structure And Unusual Protein Chemistry Of Hypoxic Response Protein 1, A Latency Antigen And Highly Expressed Member Of The Dosr Regulon In Mycobacterium Tuberculosis
J. Mol. Biol. V. 383 822 2008
PubMed-ID: 18640126  |  Reference-DOI: 10.1016/J.JMB.2008.07.001
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HYPOTHETICAL PROTEIN RV2626C
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET151
    Expression System Strain: DL41
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 1-127
    Gene: RV2626C
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 1773
    Synonym: HYPOXIC RESPONSE PROTEIN I

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 10)

Asymmetric/Biological Unit (1, 10)
No.NameCountTypeFull Name
1MSE10Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 1Y5H)

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:14 -A:39
2B:14 -B:39

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1Y5H)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1Y5H)

(-) PROSITE Motifs  (1, 4)

Asymmetric/Biological Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CBSPS51371 CBS domain profile.HRP1_MYCTO8-65
 
73-131
 		  4A:8-65
B:8-65
A:73-124
B:73-123
HRP1_MYCTU8-65
 
73-131
 		  4A:8-65
B:8-65
A:73-124
B:73-123

(-) Exons   (0, 0)

(no "Exon" information available for 1Y5H)

(-) 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:123
 aligned with HRP1_MYCTO | P9WJA2 from UniProtKB/Swiss-Prot  Length:143

    Alignment length:123
                                    11        21        31        41        51        61        71        81        91       101       111       121   
           HRP1_MYCTO     2 TTARDIMNAGVTCVGEHETLTAAAQYMREHDIGALPICGDDDRLHGMLTDRDIVIKGLAAGLDPNTATAGELARDSIYYVDANASIQEMLNVMEEHQVRRVPVISEHRLVGIVTEADIARHLP 124
               SCOP domains d1y5ha3 A:2-124 Hypothetical protein Rv2626c                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhee....ee...hhhhhhhhhhhhh..eeeee.....eeeeeehhhhhhhhhhhh......hhhhhhh.....ee...hhhhhhhhhhhhh..eeeeee..eeeeeeehhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ------CBS  PDB: A:8-65 UniProt: 8-65                            -------CBS  PDB: A:73-124 UniProt: 73-131                   PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 1y5h A   2 TTARDImNAGVTCVGEHETLTAAAQYmREHDIGALPICGDDDRLHGmLTDRDIVIKGLAAGLDPNTATAGELARDSIYYVDANASIQEmLNVmEEHQVRRVPVISEHRLVGIVTEADIARHLP 124
                                  | 11        21      | 31        41      | 51        61        71        81        91  |    101       111       121   
                                  8-MSE              28-MSE              48-MSE                                    90-MSE                              
                                                                                                                       94-MSE                          


Chain A from PDB  Type:PROTEIN  Length:123
 aligned with HRP1_MYCTU | P9WJA3 from UniProtKB/Swiss-Prot  Length:143

    Alignment length:123
                                    11        21        31        41        51        61        71        81        91       101       111       121   
           HRP1_MYCTU     2 TTARDIMNAGVTCVGEHETLTAAAQYMREHDIGALPICGDDDRLHGMLTDRDIVIKGLAAGLDPNTATAGELARDSIYYVDANASIQEMLNVMEEHQVRRVPVISEHRLVGIVTEADIARHLP 124
               SCOP domains d1y5ha3 A:2-124 Hypothetical protein Rv2626c                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhee....ee...hhhhhhhhhhhhh..eeeee.....eeeeeehhhhhhhhhhhh......hhhhhhh.....ee...hhhhhhhhhhhhh..eeeeee..eeeeeeehhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------CBS  PDB: A:8-65 UniProt: 8-65                            -------CBS  PDB: A:73-124 UniProt: 73-131                   PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------- Transcript
                 1y5h A   2 TTARDImNAGVTCVGEHETLTAAAQYmREHDIGALPICGDDDRLHGmLTDRDIVIKGLAAGLDPNTATAGELARDSIYYVDANASIQEmLNVmEEHQVRRVPVISEHRLVGIVTEADIARHLP 124
                                  | 11        21      | 31        41      | 51        61        71        81        91  |    101       111       121   
                                  8-MSE              28-MSE              48-MSE                                    90-MSE                              
                                                                                                                       94-MSE                          


Chain B from PDB  Type:PROTEIN  Length:122
 aligned with HRP1_MYCTO | P9WJA2 from UniProtKB/Swiss-Prot  Length:143

    Alignment length:122
                                    11        21        31        41        51        61        71        81        91       101       111       121  
           HRP1_MYCTO     2 TTARDIMNAGVTCVGEHETLTAAAQYMREHDIGALPICGDDDRLHGMLTDRDIVIKGLAAGLDPNTATAGELARDSIYYVDANASIQEMLNVMEEHQVRRVPVISEHRLVGIVTEADIARHL 123
               SCOP domains d1y5hb3 B:2-123 Hypothetical protein Rv2626c                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --------------------------------------------------------------------CBS-1y5hB01 B:70-123                                   Pfam domains (1)
           Pfam domains (2) --------------------------------------------------------------------CBS-1y5hB02 B:70-123                                   Pfam domains (2)
           Pfam domains (3) --------------------------------------------------------------------CBS-1y5hB03 B:70-123                                   Pfam domains (3)
           Pfam domains (4) --------------------------------------------------------------------CBS-1y5hB04 B:70-123                                   Pfam domains (4)
         Sec.struct. author .hhhhhhee....ee...hhhhhhhhhhhhh..eeeee.....eeeeeehhhhhhhhhhhh......hhhhhhh.....ee...hhhhhhhhhhhhh..eeeeee..eeeeeeehhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) ------CBS  PDB: B:8-65 UniProt: 8-65                            -------CBS  PDB: B:73-123 UniProt: 73-131                  PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 1y5h B   2 TTARDImNAGVTCVGEHETLTAAAQYmREHDIGALPICGDDDRLHGmLTDRDIVIKGLAAGLDPNTATAGELARDSIYYVDANASIQEmLNVmEEHQVRRVPVISEHRLVGIVTEADIARHL 123
                                  | 11        21      | 31        41      | 51        61        71        81        91  |    101       111       121  
                                  8-MSE              28-MSE              48-MSE                                    90-MSE                             
                                                                                                                       94-MSE                         


Chain B from PDB  Type:PROTEIN  Length:122
 aligned with HRP1_MYCTU | P9WJA3 from UniProtKB/Swiss-Prot  Length:143

    Alignment length:122
                                    11        21        31        41        51        61        71        81        91       101       111       121  
           HRP1_MYCTU     2 TTARDIMNAGVTCVGEHETLTAAAQYMREHDIGALPICGDDDRLHGMLTDRDIVIKGLAAGLDPNTATAGELARDSIYYVDANASIQEMLNVMEEHQVRRVPVISEHRLVGIVTEADIARHL 123
               SCOP domains d1y5hb3 B:2-123 Hypothetical protein Rv2626c                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) --------------------------------------------------------------------CBS-1y5hB01 B:70-123                                   Pfam domains (1)
           Pfam domains (2) --------------------------------------------------------------------CBS-1y5hB02 B:70-123                                   Pfam domains (2)
           Pfam domains (3) --------------------------------------------------------------------CBS-1y5hB03 B:70-123                                   Pfam domains (3)
           Pfam domains (4) --------------------------------------------------------------------CBS-1y5hB04 B:70-123                                   Pfam domains (4)
         Sec.struct. author .hhhhhhee....ee...hhhhhhhhhhhhh..eeeee.....eeeeeehhhhhhhhhhhh......hhhhhhh.....ee...hhhhhhhhhhhhh..eeeeee..eeeeeeehhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------CBS  PDB: B:8-65 UniProt: 8-65                            -------CBS  PDB: B:73-123 UniProt: 73-131                  PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 1y5h B   2 TTARDImNAGVTCVGEHETLTAAAQYmREHDIGALPICGDDDRLHGmLTDRDIVIKGLAAGLDPNTATAGELARDSIYYVDANASIQEmLNVmEEHQVRRVPVISEHRLVGIVTEADIARHL 123
                                  | 11        21      | 31        41      | 51        61        71        81        91  |    101       111       121  
                                  8-MSE              28-MSE              48-MSE                                    90-MSE                             
                                                                                                                       94-MSE
   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, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1Y5H)

(-) Pfam Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: CBS] (51)
(-)
Family: CBS (51)
(-)
Mycobacterium tuberculosis (2)
1aCBS-1y5hB01B:70-123
1bCBS-1y5hB02B:70-123
1cCBS-1y5hB03B:70-123
1dCBS-1y5hB04B:70-123

(-) Gene Ontology  (8, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (HRP1_MYCTU | P9WJA3)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0052553    modulation by symbiont of host immune response    Any process in which an organism modulates the frequency, rate or extent of the immune response of the host organism; the immune response is any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0052572    response to host immune response    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of detecting the immune response of the host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0001666    response to hypoxia    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating lowered oxygen tension. Hypoxia, defined as a decline in O2 levels below normoxic levels of 20.8 - 20.95%, results in metabolic adaptation at both the cellular and organismal level.
cellular component
    GO:0005618    cell wall    The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Chain A,B   (HRP1_MYCTO | P9WJA2)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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 Related Entries

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

UniProtKB/Swiss-Prot
        HRP1_MYCTO | P9WJA2: 1xkf
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(-) Related Entries Specified in the PDB File

1xkf THE SAME PROTEIN WITHOUT SE-MET AND WITH ZN+2 IONS COMPLEXED