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(-) Description

Title :  DEER MOUSE RECOMBINANT HEMOGLOBIN FROM HIGH ALTITUDE SPECIES
 
Authors :  N. Inoguchi, C. Natarajan, J. F. Storz, H. Moriyama
Date :  10 Jun 16  (Deposition) - 05 Apr 17  (Release) - 19 Apr 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B,C,D  (1x)
Biol. Unit 2:  E,F,G,H  (1x)
Keywords :  Oxygen-Transport, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Inoguchi, N. Mizuno, S. Baba, T. Kumasaka, C. Natarajan, J. F. Storz H. Moriyama
Alteration Of The Alpha 1 Beta 2/ Alpha 2 Beta 1 Subunit Interface Contributes To The Increased Hemoglobin-Oxygen Affinity Of High-Altitude Deer Mice.
Plos One V. 12 74921 2017
PubMed-ID: 28362841  |  Reference-DOI: 10.1371/JOURNAL.PONE.0174921

(-) Compounds

Molecule 1 - ALPHA-GLOBIN
    Chains: C, E, G, A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: HBA, HBA, HBAT1
    Organism Common: NORTH AMERICAN DEER MOUSE
    Organism Scientific: PEROMYSCUS MANICULATUS
    Organism Taxid: 10042
    Synonym: ALPHA-GLOBIN SUBUNIT,HEMOGLOBIN ALPHA CHAIN,HEMOGLOBIN ALPHA SUBUNIT 2,HEMOGLOBIN ALPHA-SUBUNIT
 
Molecule 2 - BETA GLOBIN
    Chains: D, F, H, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: HBB, HBB-T1, HBB-T2
    Organism Common: NORTH AMERICAN DEER MOUSE
    Organism Scientific: PEROMYSCUS MANICULATUS
    Organism Taxid: 10042
    Synonym: BETA-GLOBIN,BETA-GLOBIN SUBUNIT,HBB-T1,HBB-T2

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): ABCD    
Biological Unit 2 (1x):     EFGH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 8)

Asymmetric Unit (1, 8)
No.NameCountTypeFull Name
1HEM8Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1HEM4Ligand/IonPROTOPORPHYRIN IX CONTAINING FE
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1HEM4Ligand/IonPROTOPORPHYRIN IX CONTAINING FE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR C:42 , PHE C:43 , HIS C:45 , HIS C:58 , LYS C:61 , LEU C:83 , LEU C:86 , HIS C:87 , LEU C:91 , ASN C:97 , PHE C:98 , LEU C:101 , VAL C:132 , LEU C:136 , HOH C:315binding site for residue HEM C 201
2AC2SOFTWARETHR D:38 , PHE D:41 , PHE D:42 , HIS D:63 , SER D:70 , LEU D:88 , HIS D:92 , LEU D:96 , VAL D:98 , ASN D:102 , PHE D:103 , LEU D:106 , LEU D:141 , HOH D:324binding site for residue HEM D 201
3AC3SOFTWARETYR E:42 , PHE E:43 , HIS E:45 , HIS E:58 , LYS E:61 , VAL E:62 , HIS E:87 , LEU E:91 , VAL E:93 , ASN E:97 , PHE E:98 , LEU E:101 , LEU E:136 , HOH E:324binding site for residue HEM E 201
4AC4SOFTWAREPHE F:41 , PHE F:45 , HIS F:63 , LYS F:66 , SER F:70 , LEU F:91 , HIS F:92 , LEU F:96 , VAL F:98 , ASN F:102 , PHE F:103 , LEU F:106 , LEU F:141 , HOH F:324 , HOH F:337 , HOH F:345 , LYS G:11binding site for residue HEM F 201
5AC5SOFTWAREHIS F:2 , TYR G:42 , PHE G:43 , HIS G:45 , HIS G:58 , LYS G:61 , LEU G:83 , HIS G:87 , LEU G:91 , ASN G:97 , PHE G:98 , LEU G:101 , LEU G:136 , HOH G:312 , HOH G:348 , HOH G:353binding site for residue HEM G 201
6AC6SOFTWARETHR H:38 , PHE H:41 , PHE H:45 , HIS H:63 , LYS H:66 , VAL H:67 , SER H:70 , LEU H:88 , HIS H:92 , LEU H:96 , ASN H:102 , LEU H:106 , LEU H:141binding site for residue HEM H 201
7AC7SOFTWARETYR A:42 , PHE A:43 , HIS A:45 , PHE A:46 , HIS A:58 , LYS A:61 , LEU A:86 , HIS A:87 , LEU A:91 , ASN A:97 , PHE A:98 , LEU A:101 , HOH A:326 , HOH A:331 , HOH A:340binding site for residue HEM A 201
8AC8SOFTWARETHR B:38 , PHE B:41 , PHE B:42 , PHE B:45 , HIS B:63 , LYS B:66 , SER B:70 , LEU B:88 , HIS B:92 , LEU B:96 , VAL B:98 , ASN B:102 , PHE B:103 , LEU B:106 , LEU B:141 , HOH B:336binding site for residue HEM B 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5KER)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5KER)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5KER)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5KER)

(-) Exons   (0, 0)

(no "Exon" information available for 5KER)

(-) 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    
   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:140
                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ker A   1 VLSADDKANIKAAWGKIGGHGAEYGAEALERMFCSFPTTKTYFPHFDVSPGSAQVKGHGAKVAGALATAASHLDDLPAALSALSDLHAHKLRVDPVNFKLLSHCLLVTLAAHHPAEFTPAVHASLDKFLASVSTVLTSKY 140
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140


Chain B from PDB  Type:PROTEIN  Length:146
                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ker B   1 VHLTDAEKALVTGLWGKVKPEEIGGEALGRLLAVYPWTQRFFDSFGDLSSASAIMGNAKVKGHGKKVIDSFGEGLKHLDNLKGTFASLSELHCDKLHVDPENFKLLGNMIVIVMAHHLGKDFTPAAQAAYQKVVAGVATALAHKYH 146
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140      


Chain C from PDB  Type:PROTEIN  Length:140
                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ker C   1 VLSADDKANIKAAWGKIGGHGAEYGAEALERMFCSFPTTKTYFPHFDVSPGSAQVKGHGAKVAGALATAASHLDDLPAALSALSDLHAHKLRVDPVNFKLLSHCLLVTLAAHHPAEFTPAVHASLDKFLASVSTVLTSKY 140
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140


Chain D from PDB  Type:PROTEIN  Length:146
                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ker D   1 VHLTDAEKALVTGLWGKVKPEEIGGEALGRLLAVYPWTQRFFDSFGDLSSASAIMGNAKVKGHGKKVIDSFGEGLKHLDNLKGTFASLSELHCDKLHVDPENFKLLGNMIVIVMAHHLGKDFTPAAQAAYQKVVAGVATALAHKYH 146
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140      


Chain E from PDB  Type:PROTEIN  Length:140
                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ker E   1 VLSADDKANIKAAWGKIGGHGAEYGAEALERMFCSFPTTKTYFPHFDVSPGSAQVKGHGAKVAGALATAASHLDDLPAALSALSDLHAHKLRVDPVNFKLLSHCLLVTLAAHHPAEFTPAVHASLDKFLASVSTVLTSKY 140
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140


Chain F from PDB  Type:PROTEIN  Length:146
                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ker F   1 VHLTDAEKALVTGLWGKVKPEEIGGEALGRLLAVYPWTQRFFDSFGDLSSASAIMGNAKVKGHGKKVIDSFGEGLKHLDNLKGTFASLSELHCDKLHVDPENFKLLGNMIVIVMAHHLGKDFTPAAQAAYQKVVAGVATALAHKYH 146
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140      


Chain G from PDB  Type:PROTEIN  Length:140
                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ker G   1 VLSADDKANIKAAWGKIGGHGAEYGAEALERMFCSFPTTKTYFPHFDVSPGSAQVKGHGAKVAGALATAASHLDDLPAALSALSDLHAHKLRVDPVNFKLLSHCLLVTLAAHHPAEFTPAVHASLDKFLASVSTVLTSKY 140
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140


Chain H from PDB  Type:PROTEIN  Length:146
                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ker H   1 VHLTDAEKALVTGLWGKVKPEEIGGEALGRLLAVYPWTQRFFDSFGDLSSASAIMGNAKVKGHGKKVIDSFGEGLKHLDNLKGTFASLSELHCDKLHVDPENFKLLGNMIVIVMAHHLGKDFTPAAQAAYQKVVAGVATALAHKYH 146
                                    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)
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  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  (0, 0)

(no "SCOP Domain" information available for 5KER)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5KER)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5KER)

(-) Gene Ontology  (8, 16)

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