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(-) Description

Title :  REFINED STRUCTURES AT 2 ANGSTROMS AND 2.2 ANGSTROMS OF THE TWO FORMS OF THE H-PROTEIN, A LIPOAMIDE-CONTAINING PROTEIN OF THE GLYCINE DECARBOXYLASE
 
Authors :  S. Pares, C. Cohen-Addad, L. Sieker, M. Neuburger, R. Douce
Date :  17 Feb 94  (Deposition) - 08 May 95  (Release) - 16 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Transit Peptide (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Pares, C. Cohen-Addad, L. C. Sieker, M. Neuburger, R. Douce
Refined Structures At 2 And 2. 2 A Resolution Of Two Forms O The H-Protein, A Lipoamide-Containing Protein Of The Glycin Decarboxylase Complex.
Acta Crystallogr. , Sect. D V. 51 1041 1995
PubMed-ID: 15299773  |  Reference-DOI: 10.1107/S0907444995006421
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - H PROTEIN OF THE GLYCINE CLEAVAGE SYSTEM
    Chains: A, B
    EC Number: 1.4.4.2
    Engineered: YES
    Organism Common: PEA
    Organism Scientific: PISUM SATIVUM
    Organism Taxid: 3888

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1LPA1Ligand/IonLIPOIC ACID
2LPB1Ligand/Ion5-[(3S)-1,2-DITHIOLAN-3-YL]PENTANOIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:34 , LYS A:63 , ALA A:64 , HOH A:161 , SER B:21 , THR B:65BINDING SITE FOR RESIDUE LPB A 132
2AC2SOFTWARESER A:21 , HIS B:34 , LYS B:63 , HOH B:191BINDING SITE FOR RESIDUE LPA B 132

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1HPC)

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 4)

Asymmetric/Biological Unit (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BIOTINYL_LIPOYLPS50968 Biotinyl/lipoyl domain profile.GCSH_PEA56-138
 		  2A:22-104
B:22-104
2LIPOYLPS00189 2-oxo acid dehydrogenases acyltransferase component lipoyl binding site.GCSH_PEA81-110
 		  2A:47-76
B:47-76

(-) Exons   (0, 0)

(no "Exon" information available for 1HPC)

(-) 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:131
 aligned with GCSH_PEA | P16048 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:131
                                    44        54        64        74        84        94       104       114       124       134       144       154       164 
             GCSH_PEA    35 SNVLDGLKYAPSHEWVKHEGSVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVNTGLTGKPGLINSSPYEDGWMIKIKPTSPDELESLLGAKEYTKFCEEEDAAH 165
               SCOP domains d1hpca_ A: Protein H of glycine cleavage system                                                                                     SCOP domains
               CATH domains 1hpcA00 A:1-131  [code=2.40.50.100, no name defined]                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
     Sec.struct. author (1) ...........hhhhhhhhhhhhhhhhhh.......eeeeeee...........eeeeeee...eeeeee...eeeeeee....................eeeee.............hhhhhhhhhh... Sec.struct. author (1)
     Sec.struct. author (2) ------------eeeeeee--eeeeeee------------------------------------------------------------------------------------------------------- Sec.struct. author (2)
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---------------------BIOTINYL_LIPOYL  PDB: A:22-104 UniProt: 56-138                                     --------------------------- PROSITE (1)
                PROSITE (2) ----------------------------------------------LIPOYL  PDB: A:47-76          ------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1hpc A   1 SNVLDGLKYAPSHEWVKHEGSVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVNTGLTGKPGLINSSPYEDGWMIKIKPTSPDELESLLGAKEYTKFCEEEDAAH 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 


Chain B from PDB  Type:PROTEIN  Length:131
 aligned with GCSH_PEA | P16048 from UniProtKB/Swiss-Prot  Length:165

    Alignment length:131
                                    44        54        64        74        84        94       104       114       124       134       144       154       164 
             GCSH_PEA    35 SNVLDGLKYAPSHEWVKHEGSVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVNTGLTGKPGLINSSPYEDGWMIKIKPTSPDELESLLGAKEYTKFCEEEDAAH 165
               SCOP domains d1hpcb_ B: Protein H of glycine cleavage system                                                                                     SCOP domains
               CATH domains 1hpcB00 B:1-131  [code=2.40.50.100, no name defined]                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
     Sec.struct. author (1) ...........hhhhhhhhhhhhhhhhhh.......eeeeeee...........eeeeeee...eeeeee...eeeeeee....................eeeee.............hhhhhhhhhh... Sec.struct. author (1)
     Sec.struct. author (2) ------------eeeeeee--eeeeeee------------------------------------------------------------------------------------------------------- Sec.struct. author (2)
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---------------------BIOTINYL_LIPOYL  PDB: B:22-104 UniProt: 56-138                                     --------------------------- PROSITE (1)
                PROSITE (2) ----------------------------------------------LIPOYL  PDB: B:47-76          ------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1hpc B   1 SNVLDGLKYAPSHEWVKHEGSVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVESVKATSDVNSPISGEVIEVNTGLTGKPGLINSSPYEDGWMIKIKPTSPDELESLLGAKEYTKFCEEEDAAH 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130
   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: All beta proteins (24004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1HPC)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (GCSH_PEA | P16048)
biological process
    GO:0019464    glycine decarboxylation via glycine cleavage system    The chemical reactions and pathways resulting in the breakdown of glycine by oxidative cleavage to carbon dioxide, ammonia, and a methylene group, mediated by enzymes of the glycine cleavage complex.
cellular component
    GO:0005960    glycine cleavage complex    A protein complex that catalyzes the reversible oxidation of glycine. In E. coli, it has four components: dihydrolipoamide dehydrogenase, glycine dehydrogenase (decarboxylating), lipoyl-GcvH-protein and aminomethyltransferase, also known as L, P, H, and T.
    GO:0005739    mitochondrion    A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.

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 Related Entries

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UniProtKB/Swiss-Prot
        GCSH_PEA | P16048: 1dxm 1htp

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