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(-) Description

Title :  X-RAY STRUCTURE OF CARBONMONOXY HEMOGLOBIN OF ELEGINOPS MACLOVINUS
 
Authors :  A. Merlino, L. Vitagliano, L. Mazzarella, A. Vergara
Date :  23 Apr 12  (Deposition) - 07 Nov 12  (Release) - 02 Jan 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.45
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Haemoglobin, Ligand-Binding Properties, Root Effect, Quaternary Structure, Structure/Function Relationship, Oxygen Transporter, O2, Blood, Oxygen Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Coppola, S. Abbruzzetti, F. Nicoletti, A. Merlino, A. Gambacurta, D. Giordano, B. D. Howes, G. De Sanctis, L. Vitagliano, S. Bruno, G. Di Prisco, L. Mazzarella, G. Smulevich, M. Coletta, C. Viappiani, A. Vergara, C. Verde
Atp Regulation Of The Ligand-Binding Properties In Temperat And Cold-Adapted Haemoglobins. X-Ray Structure And Ligand-Binding Kinetics In The Sub-Antarctic Fish Eleginops Maclovinus.
Mol Biosyst V. 8 3295 2012
PubMed-ID: 23086282  |  Reference-DOI: 10.1039/C2MB25210D
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - HEMOGLOBIN ALPHA CHAIN
    Chains: A, C
    Organism Scientific: ELEGINOPS MACLOVINUS
    Organism Taxid: 56733
 
Molecule 2 - HEMOGLOBIN BETA CHAIN
    Chains: B, D
    Organism Scientific: ELEGINOPS MACLOVINUS
    Organism Taxid: 56733

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 11)

Asymmetric/Biological Unit (4, 11)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2CMO4Ligand/IonCARBON MONOXIDE
3GOL1Ligand/IonGLYCEROL
4HEM4Ligand/IonPROTOPORPHYRIN IX CONTAINING FE

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:59 , VAL A:63 , HEM A:202BINDING SITE FOR RESIDUE CMO A 201
2AC2SOFTWARETYR A:42 , PHE A:43 , HIS A:45 , TRP A:46 , HIS A:59 , THR A:62 , GLN A:87 , HIS A:88 , LEU A:92 , ASN A:98 , PHE A:99 , LEU A:102 , LEU A:137 , CMO A:201 , HOH A:356 , HOH A:366 , HOH A:369 , HOH A:382BINDING SITE FOR RESIDUE HEM A 202
3AC3SOFTWAREHIS B:63 , VAL B:67 , HEM B:202BINDING SITE FOR RESIDUE CMO B 201
4AC4SOFTWARETHR B:38 , HIS B:41 , PHE B:42 , HIS B:63 , LEU B:88 , HIS B:92 , LEU B:96 , ASN B:102 , PHE B:103 , LEU B:106 , LEU B:141 , CMO B:201BINDING SITE FOR RESIDUE HEM B 202
5AC5SOFTWAREHIS C:59 , VAL C:63 , HEM C:202BINDING SITE FOR RESIDUE CMO C 201
6AC6SOFTWARETYR C:42 , PHE C:43 , HIS C:45 , TRP C:46 , HIS C:59 , THR C:62 , GLN C:87 , HIS C:88 , LEU C:92 , ASN C:98 , LEU C:102 , LEU C:137 , CMO C:201 , HOH C:367BINDING SITE FOR RESIDUE HEM C 202
7AC7SOFTWAREHIS D:63 , VAL D:67 , HEM D:202BINDING SITE FOR RESIDUE CMO D 201
8AC8SOFTWARETHR D:38 , HIS D:41 , PHE D:42 , HIS D:63 , LYS D:66 , LEU D:88 , HIS D:92 , LYS D:95 , LEU D:96 , VAL D:98 , ASN D:102 , PHE D:103 , LEU D:106 , LEU D:141 , CMO D:201 , HOH D:1053 , HOH D:1069 , HOH D:1112BINDING SITE FOR RESIDUE HEM D 202
9AC9SOFTWARETHR A:41 , ARG D:40 , HIS D:41 , LYS D:95 , LEU D:96 , HIS D:97 , HOH D:1074BINDING SITE FOR RESIDUE GOL D 203

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4ESA)

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ESA)

(-) 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:143
                                                                                                                                                                               
               SCOP domains d4esaa_ A: automated matches                                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4esa A   0 xSLSDKDKAAVKLLWSKISKSSDAIGNDALSRMIVVYPQTKTYFAHWPDLSPGSPHVKAHGKTVMGGIALAVSKIDDLRAGLLDLSEQHAYKLRVDPANFKILSHCILVVISMMFPKEFTPEAHVSLDKFLSGVSLALSERYR 142
                            |        9        19        29        39        49        59        69        79        89        99       109       119       129       139   
                            |                                                                                                                                              
                            0-ACE                                                                                                                                          


Chain B from PDB  Type:PROTEIN  Length:144
                                                                                                                                                                                
               SCOP domains d4esab_ B: automated matches                                                                                                                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4esa B   1 VEWTDQERATISSIFGSLDYDDIGPKALSRCLIVYPWTQRHFGSFGNLYNAEAIIGNQKVAAHGIKVLHGLDRAVKNMDNIKEIYAELSILHSEKLHVDPDNFKLLADCLTIVVAAKMGSGFNPGTQATFQKFLAVVVSALGKQ 144
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140    


Chain C from PDB  Type:PROTEIN  Length:143
                                                                                                                                                                               
               SCOP domains d4esac_ C: automated matches                                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4esa C   0 xSLSDKDKAAVKLLWSKISKSSDAIGNDALSRMIVVYPQTKTYFAHWPDLSPGSPHVKAHGKTVMGGIALAVSKIDDLRAGLLDLSEQHAYKLRVDPANFKILSHCILVVISMMFPKEFTPEAHVSLDKFLSGVSLALSERYR 142
                            |        9        19        29        39        49        59        69        79        89        99       109       119       129       139   
                            0-ACE                                                                                                                                          


Chain D from PDB  Type:PROTEIN  Length:145
                                                                                                                                                                                 
               SCOP domains d4esad_ D: automated matches                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4esa D   1 VEWTDQERATISSIFGSLDYDDIGPKALSRCLIVYPWTQRHFGSFGNLYNAEAIIGNQKVAAHGIKVLHGLDRAVKNMDNIKEIYAELSILHSEKLHVDPDNFKLLADCLTIVVAAKMGSGFNPGTQATFQKFLAVVVSALGKQY 145
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140
   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, 4)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 16)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

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(-) Related Entries Specified in the PDB File

1pbx CRYSTAL STRUCTURE OF CARBONMONOXY FORM OF TREMATOMUS BERNACHII HEMOGLOBIN
1t1n CRYSTAL STRUCTURE OF CARBONMONOXY FORM OF TREMATOMUS NEWNESI HAEMOGLOBIN
2aa1 CRYSTAL STRUCTURE OF THE CATHODIC HEMOGLOBIN ISOLATED FROM THE ANTARCTIC FISH TREMATOMUS NEWNESI
2h8d CRYSTAL STRUCTURE OF DEOXY HEMOGLOBIN FROM TREMATOMUS BERNACCHII AT PH 8.4
2h8f CRYSTAL STRUCTURE OF DEOXY HEMOGLOBIN FROM TREMATOMUS BERNACCHII AT PH 6.2
3gkv X-RAY STRUCTURE OF AN INTERMEDIATE ALONG THE OXIDATION PATHWAY OF TREMATOMUS BERNACCHII HEMOGLOBIN