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(-) Description

Title :  3D STRUCTURE OF FERRIC METHANOSARCINA ACETIVORANS PROTOGLOBIN Y61W MUTANT IN AQUOMET FORM
 
Authors :  A. Pesce, L. Tilleman, S. Dewilde, P. Ascenzi, M. Coletta, C. Ciaccio, S L. Moens, M. Bolognesi, M. Nardini
Date :  07 Mar 11  (Deposition) - 08 Jun 11  (Release) - 08 Jun 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Protoglobin, Globin Fold, Methanogenesis, Archaea Protein, Oxygen Binding, Oxygen Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Pesce, L. Tilleman, S. Dewilde, P. Ascenzi, M. Coletta, C. Ciaccio, S. Bruno, L. Moens, M. Bolognesi, M. Nardini
Structural Heterogeneity And Ligand Gating In Ferric Methanosarcina Acetivorans Protoglobin Mutants.
Iubmb Life V. 63 287 2011
PubMed-ID: 21618401  |  Reference-DOI: 10.1002/IUB.484
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - METHANOSARCINA ACETIVORANS PROTOGLOBIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: MA_2883
    Mutation: YES
    Organism Scientific: METHANOSARCINA ACETIVORANS
    Organism Taxid: 2214

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:70 , TYR A:73 , TYR A:85 , VAL A:89 , ARG A:92 , PHE A:93 , TRP A:96 , TYR A:112 , ARG A:119 , HIS A:120 , LYS A:125 , ASN A:126 , ILE A:137 , TYR A:141 , PHE A:145 , VAL A:182 , TRP A:185 , HOH A:196 , HOH A:223 , HOH A:230BINDING SITE FOR RESIDUE HEM A 200

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3QZZ)

(-) Sequences/Alignments

Asymmetric Unit
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SAPs(SNPs) PROSITE motifs Exons
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Chain A from PDB  Type:PROTEIN  Length:190
 aligned with Q8TLY9_METAC | Q8TLY9 from UniProtKB/TrEMBL  Length:195

    Alignment length:190
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195
         Q8TLY9_METAC     6 IPGYTYGETENRAPFNLEDLKLLKEAVMFTAEDEEYIQKAGEVLEDQVEEILDTWYGFVGSHPHLLYYFTSPDGTPNEKYLAAVRKRFSRWILDTCNRSYDQAWLDYQYEIGLRHHRTKKNQTDNVESVPNIGYRYLVAFIYPITATMKPFLARKGHTPEEVEKMYQAWFKATTLQVALWSYPYVKYGDF 195
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains Protoglobin-3qzzA01 A:6-195                                                                                                                                                                    Pfam domains
         Sec.struct. author ...............hhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.hhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qzz A   6 IPGYTYGETENRAPFNLEDLKLLKEAVMFTAEDEEYIQKAGEVLEDQVEEILDTWWGFVGSHPHLLYYFTSPDGTPNEKYLAAVRKRFSRWILDTSNRSYDQAWLDYQYEIGLRHHRTKKNQTDNVESVPNIGYRYLVAFIYPITATMKPFLARKGHTPEEVEKMYQAWFKATTLQVALWSYPYVKYGDF 195
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195
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 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3QZZ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3QZZ)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: no clan defined [family: Protoglobin] (5)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q8TLY9_METAC | Q8TLY9)
molecular function
    GO:0020037    heme binding    Interacting selectively and non-covalently with heme, any compound of iron complexed in a porphyrin (tetrapyrrole) ring.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0019825    oxygen binding    Interacting selectively and non-covalently with oxygen (O2).

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 Related Entries

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UniProtKB/TrEMBL
        Q8TLY9_METAC | Q8TLY9: 2veb 2vee 3qzx 3r0g 3zh0 3zjh 3zji 3zjj 3zjl 3zjm 3zjn 3zjo 3zjp 3zjq 3zjr 3zjs 3zol 3zom

(-) Related Entries Specified in the PDB File

2veb HIGH RESOLUTION STRUCTURE OF PROTOGLOBIN FROM METHANOSARCINA ACETIVORANS C2A
2vee STRUCTURE OF FERRIC PROTOGLOBIN FROM METHANOSARCINA ACETIVORANS C2A
3qzx STRUCTURE OF FERRIC METHANOSARCINA ACETIVORANS PROTOGLOBIN Y61A MUTANT WITH UNKNOWN LIGAND
3r0g STRUCTURE OF FERRIC METHANOSARCINA ACETIVORANS PROTOGLOBIN I149F MUTANT IN AQUOMET FORM