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(-) Description

Title :  CRYSTAL STRUCTURE OF THE TRUNCATED HEMOGLOBIN FROM GEOBACILLUS STEAROTHERMOPHILUS
 
Authors :  A. Ilari, P. Kjelgaard, C. Von Wachenfeldt, A. Boffi, E. Chiancone
Date :  08 Feb 06  (Deposition) - 29 Nov 06  (Release) - 12 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.50
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Hypothetical Protein, Oxygen Transport, Transport, Oxygen Storage (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Ilari, P. Kjelgaard, C. Von Wachenfeldt, B. Catacchio, E. Chiancone, A. Boffi
Crystal Structure And Ligand Binding Properties Of The Truncated Hemoglobin From Geobacillus Stearothermophilus
Arch. Biochem. Biophys. V. 457 85 2007
PubMed-ID: 17126283  |  Reference-DOI: 10.1016/J.ABB.2006.09.033

(-) Compounds

Molecule 1 - TRUNCATED HEMOGLOBIN FROM GEOBACILLUS STEAROTHERMOPHILUS
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET101/D-TOPO
    Expression System Strain: TUNER(DE3)
    Expression System Taxid: 562
    Organism Scientific: GEOBACILLUS STEAROTHERMOPHILUS
    Organism Taxid: 1422

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric Unit (3, 6)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2HEM2Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3OXY2Ligand/IonOXYGEN MOLECULE
Biological Unit 1 (3, 3)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3OXY1Ligand/IonOXYGEN MOLECULE
Biological Unit 2 (3, 3)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2HEM1Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
3OXY1Ligand/IonOXYGEN MOLECULE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:25 , TYR A:26 , PHE A:39 , THR A:46 , GLN A:50 , TRP A:90 , OXY A:201 , HEM A:202BINDING SITE FOR RESIDUE ACT L1133
2AC2SOFTWAREPHE B:25 , TYR B:26 , PHE B:39 , THR B:46 , GLN B:50 , TRP B:90 , OXY B:201 , HEM B:202BINDING SITE FOR RESIDUE ACT L1134
3AC3SOFTWARETYR A:26 , PHE A:39 , GLN A:50 , TRP A:90 , HEM A:202 , ACT A:203BINDING SITE FOR RESIDUE OXY A1131
4AC4SOFTWAREILE A:38 , PHE A:39 , THR A:46 , LYS A:49 , GLN A:50 , PHE A:53 , TYR A:64 , HIS A:77 , PHE A:80 , ALA A:87 , TRP A:90 , LEU A:115 , OXY A:201 , HOH A:340 , HOH A:353 , HOH A:341 , ACT A:203BINDING SITE FOR RESIDUE HEM A1132
5AC5SOFTWARETYR B:26 , PHE B:39 , GLN B:50 , TRP B:90 , HEM B:202 , ACT B:203BINDING SITE FOR RESIDUE OXY B1131
6AC6SOFTWAREILE B:38 , PHE B:39 , THR B:46 , LYS B:49 , GLN B:50 , PHE B:53 , TYR B:64 , LEU B:73 , ARG B:76 , HIS B:77 , PHE B:80 , TRP B:90 , LEU B:115 , THR B:118 , OXY B:201 , HOH B:355 , HOH B:325 , ACT B:203BINDING SITE FOR RESIDUE HEM B1132

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2BKM)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2BKM)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2BKM)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2BKM)

(-) Exons   (0, 0)

(no "Exon" information available for 2BKM)

(-) Sequences/Alignments

Asymmetric 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:128
 aligned with Q5L1S0_GEOKA | Q5L1S0 from UniProtKB/TrEMBL  Length:137

    Alignment length:128
                                    12        22        32        42        52        62        72        82        92       102       112       122        
         Q5L1S0_GEOKA     3 EQWQTLYEAIGGEETVAKLVEAFYRRVAAHPDLRPIFPDDLTETARKQKQFLTQYLGGPPLYTAEHGHPMLRARHLRFEITPKRAEAWLACMRAAMDEIGLSGPAREQFYHRLVLTAHHMVNTPDHLD 130
               SCOP domains d2bkma_ A: automated matches                                                                                                     SCOP domains
               CATH domains 2bkmA00 A:3-130 Globins                                                                                                          CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh...hhhhhhhhhhhhhhhh...hhhhhhhh..hhhhhhh....hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bkm A   3 EQWQTLYEAIGGEETVAKLVEAFYRRVAAHPDLRPIFPDDLTETAHKQKQFLTQYLGGPPLYTAEHGHPMLRARHLRFEITPKRAEAWLACMRAAMDEIGLSGPAREQFYHRLVLTAHHMVNTPDHLD 130
                                    12        22        32        42        52        62        72        82        92       102       112       122        


Chain B from PDB  Type:PROTEIN  Length:128
 aligned with Q5L1S0_GEOKA | Q5L1S0 from UniProtKB/TrEMBL  Length:137

    Alignment length:128
                                    12        22        32        42        52        62        72        82        92       102       112       122        
         Q5L1S0_GEOKA     3 EQWQTLYEAIGGEETVAKLVEAFYRRVAAHPDLRPIFPDDLTETARKQKQFLTQYLGGPPLYTAEHGHPMLRARHLRFEITPKRAEAWLACMRAAMDEIGLSGPAREQFYHRLVLTAHHMVNTPDHLD 130
               SCOP domains d2bkmb_ B: automated matches                                                                                                     SCOP domains
               CATH domains 2bkmB00 B:3-130 Globins                                                                                                          CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhh...hhhhhhhh..hhhhhhh....hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bkm B   3 EQWQTLYEAIGGEETVAKLVEAFYRRVAAHPDLRPIFPDDLTETAHKQKQFLTQYLGGPPLYTAEHGHPMLRARHLRFEITPKRAEAWLACMRAAMDEIGLSGPAREQFYHRLVLTAHHMVNTPDHLD 130
                                    12        22        32        42        52        62        72        82        92       102       112       122
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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, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2BKM)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q5L1S0_GEOKA | Q5L1S0)
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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