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(-) Description

Title :  C.LACTEUS NERVE HB IN COMPLEX WITH CO
 
Authors :  F. Germani, A. Pesce, A. Venturini, L. Moens, M. Bolognesi, S. Dewilde, M. Nardini
Date :  25 May 12  (Deposition) - 17 Apr 13  (Release) - 05 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym./Biol. Unit :  A
Keywords :  Oxygen Transport, Nerve Globin, Heme Reactivity, Carbon Monoxide, Protein Matrix Tunnel (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Germani, A. Pesce, A. Venturini, L. Moens, M. Bolognesi, S. Dewilde M. Nardini
High Resolution Crystal Structures Of The Cerebratulus Lacteus Mini-Hb In The Unligated And Carbomonoxy States.
Int. J. Mol. Sci. V. 13 8025 2012
PubMed-ID: 22942687  |  Reference-DOI: 10.3390/IJMS13078025

(-) Compounds

Molecule 1 - NEURAL HEMOGLOBIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Common: MILKY RIBBON-WORM
    Organism Scientific: CEREBRATULUS LACTEUS
    Organism Taxid: 6221
    Synonym: NRHB

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 6)

Asymmetric/Biological Unit (5, 6)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2CMO1Ligand/IonCARBON MONOXIDE
3GOL1Ligand/IonGLYCEROL
4HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
5SO42Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREMET A:0 , PHE A:10 , TYR A:21 , LYS A:24 , PHE A:25 , GLN A:44 , LYS A:47 , LEU A:65 , ARG A:68 , HIS A:69 , ARG A:72 , VAL A:74 , GLU A:78 , PHE A:79 , ALA A:82 , ILE A:102 , CMO A:1110 , SO4 A:1114 , HOH A:2036 , HOH A:2042 , HOH A:2120 , HOH A:2122BINDING SITE FOR RESIDUE HEM A 144
2AC2SOFTWARETYR A:11 , PHE A:25 , GLN A:44 , HEM A:144BINDING SITE FOR RESIDUE CMO A1110
3AC3SOFTWAREVAL A:1 , ASN A:2 , TRP A:3 , ALA A:4 , VAL A:49 , ASN A:53 , ASP A:61 , GLY A:64 , ARG A:68 , HOH A:2123 , HOH A:2124BINDING SITE FOR RESIDUE GOL A1112
4AC4SOFTWAREHIS A:18 , GLU A:20 , ALA A:39 , LYS A:42 , HOH A:2027 , HOH A:2100BINDING SITE FOR RESIDUE SO4 A1113
5AC5SOFTWAREMET A:0 , VAL A:1 , TRP A:3 , ALA A:31 , ARG A:68 , HEM A:144 , HOH A:2048 , HOH A:2054 , HOH A:2068 , HOH A:2125 , HOH A:2126BINDING SITE FOR RESIDUE SO4 A1114
6AC6SOFTWAREASN A:2 , HIS A:93BINDING SITE FOR RESIDUE ACT A1115

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4AVD)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4AVD)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4AVD)

(-) Exons   (0, 0)

(no "Exon" information available for 4AVD)

(-) 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    
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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:110
 aligned with GLBN_CERLA | O76242 from UniProtKB/Swiss-Prot  Length:110

    Alignment length:110
                                    10        20        30        40        50        60        70        80        90       100       110
           GLBN_CERLA     1 MVNWAAVVDDFYQELFKAHPEYQNKFGFKGVALGSLKGNAAYKTQAGKTVDYINAAIGGSADAAGLASRHKGRNVGSAEFHNAKACLAKACSAHGAPDLGHAIDDILSHL 110
               SCOP domains d4avda_ A: Nerve tissue mini-hemoglobin (neural globin)                                                        SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                 4avd A   0 MVNWAAVVDDFYQELFKAHPEYQNKFGFKGVALGSLKGNAAYKTQAGKTVDYINAAIGGSADAAGLASRHKGRNVGSAEFHNAKACLAKACSAHGAPDLGHAIDDILSHL 109
                                     9        19        29        39        49        59        69        79        89        99       109
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  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 alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4AVD)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4AVD)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (GLBN_CERLA | O76242)
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).
    GO:0005344    oxygen transporter activity    Enables the directed movement of oxygen into, out of or within a cell, or between cells.
biological process
    GO:0015671    oxygen transport    The directed movement of oxygen (O2) into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.

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  4avd
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 Related Entries

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

UniProtKB/Swiss-Prot
        GLBN_CERLA | O76242: 1kr7 1v07 2vyy 2vyz 2xkg 2xkh 2xki 4ave 4f68 4f69 4f6b 4f6d 4f6f 4f6g 4f6i 4f6j

(-) Related Entries Specified in the PDB File

1kr7 CRYSTAL STRUCTURE OF THE NERVE TISSUE MINI-HEMOGLOBIN FROMTHE NEMERTEAN WORM CEREBRATULUS LACTEUS
1v07 CRYSTAL STRUCTURE OF THRE11VAL MUTANT OF THE NERVE TISSUE MINI-HEMOGLOBIN FROM THE NEMERTEAN WORM CEREBRATULUS LACTEUS
2vyy MUTANT ALA55TRP OF CEREBRATULS LACTEUS MINI-HEMOGLOBIN
2vyz MUTANT ALA55PHE OF CEREBRATULUS LACTEUS MINI-HEMOGLOBIN
2xkg C.LACTEUS MINI-HB LEU86ALA MUTANT
2xkh XE DERIVATIVE OF C.LACTEUS MINI-HB LEU86ALA MUTANT
2xki AQUO-MET STRUCTURE OF C.LACTEUS MINI-HB
4ave C.LACTEUS NERVE HB IN THE DEOXY FORM