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3LHB
Asym. Unit
Info
Asym.Unit (275 KB)
Biol.Unit 1 (49 KB)
Biol.Unit 2 (49 KB)
Biol.Unit 3 (49 KB)
Biol.Unit 4 (49 KB)
Biol.Unit 5 (49 KB)
Biol.Unit 6 (49 KB)
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(1)
Title
:
THE 2.7 ANGSTROM CRYSTAL STRUCTURE OF DEOXYGENATED HEMOGLOBIN FROM THE SEA LAMPREY (PETROMYZON MARINUS)
Authors
:
H. A. Heaslet, W. E. Royer Jr.
Date
:
12 Jan 99 (Deposition) - 20 Jan 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: G,H (1x)
Biol. Unit 5: I,J (1x)
Biol. Unit 6: K,L (1x)
Keywords
:
Hemoglobin, Oxygen Transport, Bohr Effect, Metal Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
H. A. Heaslet, W. E. Royer Jr.
The 2. 7 A Crystal Structure Of Deoxygenated Hemoglobin From The Sea Lamprey (Petromyzon Marinus): Structural Basis For A Lowered Oxygen Affinity And Bohr Effect.
Structure Fold. Des. V. 7 517 1999
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 12)
Info
All Hetero Components
1a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
1b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
1c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
1d: PROTOPORPHYRIN IX CONTAINING FE (HEMd)
1e: PROTOPORPHYRIN IX CONTAINING FE (HEMe)
1f: PROTOPORPHYRIN IX CONTAINING FE (HEMf)
1g: PROTOPORPHYRIN IX CONTAINING FE (HEMg)
1h: PROTOPORPHYRIN IX CONTAINING FE (HEMh)
1i: PROTOPORPHYRIN IX CONTAINING FE (HEMi)
1j: PROTOPORPHYRIN IX CONTAINING FE (HEMj)
1k: PROTOPORPHYRIN IX CONTAINING FE (HEMk)
1l: PROTOPORPHYRIN IX CONTAINING FE (HEMl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
HEM
12
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
[
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]
Sites
(24, 24)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: F10 (AUTHOR)
14: F11 (AUTHOR)
15: F12 (AUTHOR)
16: FE1 (AUTHOR)
17: FE2 (AUTHOR)
18: FE3 (AUTHOR)
19: FE4 (AUTHOR)
20: FE5 (AUTHOR)
21: FE6 (AUTHOR)
22: FE7 (AUTHOR)
23: FE8 (AUTHOR)
24: FE9 (AUTHOR)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PHE A:51 , PHE A:52 , LYS A:54 , HIS A:73 , ARG A:76 , LYS A:104 , HIS A:105 , PHE A:109 , VAL A:111 , TYR A:115 , PHE A:116 , LEU A:119 , LEU A:145
BINDING SITE FOR RESIDUE HEM A 150
02
AC2
SOFTWARE
PHE B:51 , PHE B:52 , LYS B:54 , HIS B:73 , ARG B:76 , ALA B:80 , LYS B:104 , HIS B:105 , PHE B:109 , VAL B:111 , TYR B:115 , PHE B:116 , LEU B:119 , LEU B:145
BINDING SITE FOR RESIDUE HEM B 150
03
AC3
SOFTWARE
PHE C:51 , PHE C:52 , LYS C:54 , HIS C:73 , ARG C:76 , ALA C:80 , LYS C:104 , HIS C:105 , PHE C:109 , VAL C:111 , TYR C:115 , PHE C:116 , LEU C:119 , LEU C:145
BINDING SITE FOR RESIDUE HEM C 150
04
AC4
SOFTWARE
PHE D:51 , PHE D:52 , LYS D:54 , HIS D:73 , ARG D:76 , LYS D:104 , HIS D:105 , PHE D:109 , VAL D:111 , TYR D:115 , PHE D:116 , LEU D:119 , LEU D:145
BINDING SITE FOR RESIDUE HEM D 150
05
AC5
SOFTWARE
PHE E:51 , PHE E:52 , LYS E:54 , HIS E:73 , ARG E:76 , ALA E:80 , LYS E:104 , HIS E:105 , PHE E:109 , VAL E:111 , TYR E:115 , PHE E:116 , LEU E:119 , LEU E:145
BINDING SITE FOR RESIDUE HEM E 150
06
AC6
SOFTWARE
PHE F:51 , PHE F:52 , LYS F:54 , HIS F:73 , ARG F:76 , LYS F:104 , HIS F:105 , PHE F:109 , VAL F:111 , TYR F:115 , PHE F:116 , LEU F:119 , LEU F:145
BINDING SITE FOR RESIDUE HEM F 150
07
AC7
SOFTWARE
PHE G:51 , PHE G:52 , LYS G:54 , HIS G:73 , ARG G:76 , LYS G:104 , HIS G:105 , PHE G:109 , VAL G:111 , TYR G:115 , PHE G:116 , LEU G:119 , LEU G:145
BINDING SITE FOR RESIDUE HEM G 150
08
AC8
SOFTWARE
PHE H:51 , PHE H:52 , LYS H:54 , HIS H:73 , ARG H:76 , LYS H:104 , HIS H:105 , PHE H:109 , VAL H:111 , TYR H:115 , LEU H:119 , LEU H:145
BINDING SITE FOR RESIDUE HEM H 150
09
AC9
SOFTWARE
PHE I:51 , PHE I:52 , LYS I:54 , HIS I:73 , ARG I:76 , ALA I:80 , LYS I:104 , HIS I:105 , PHE I:109 , VAL I:111 , TYR I:115 , PHE I:116 , LEU I:119 , LEU I:145
BINDING SITE FOR RESIDUE HEM I 150
10
BC1
SOFTWARE
PHE J:51 , PHE J:52 , LYS J:54 , HIS J:73 , ARG J:76 , LYS J:104 , HIS J:105 , PHE J:109 , VAL J:111 , TYR J:115 , PHE J:116 , LEU J:119 , LEU J:145
BINDING SITE FOR RESIDUE HEM J 150
11
BC2
SOFTWARE
PHE K:51 , PHE K:52 , LYS K:54 , HIS K:73 , ARG K:76 , ALA K:80 , LYS K:104 , HIS K:105 , PHE K:109 , VAL K:111 , TYR K:115 , PHE K:116 , LEU K:119 , LEU K:145
BINDING SITE FOR RESIDUE HEM K 150
12
BC3
SOFTWARE
PHE L:51 , PHE L:52 , LYS L:54 , HIS L:73 , ARG L:76 , LYS L:104 , HIS L:105 , PHE L:109 , VAL L:111 , TYR L:115 , PHE L:116 , LEU L:119 , LEU L:145
BINDING SITE FOR RESIDUE HEM L 150
13
F10
AUTHOR
HIS J:73 , HIS J:105
HIS 73 IS THE PROXIMAL HISTIDINE AND HIS 105 IS THE DISTAL HISTIDINE
14
F11
AUTHOR
HIS K:73 , HIS K:105
HIS 73 IS THE PROXIMAL HISTIDINE AND HIS 105 IS THE DISTAL HISTIDINE
15
F12
AUTHOR
HIS L:73 , HIS L:105
HIS 73 IS THE PROXIMAL HISTIDINE AND HIS 105 IS THE DISTAL HISTIDINE
16
FE1
AUTHOR
HIS A:73 , HIS A:105
HIS 73 IS THE PROXIMAL HISTIDINE AND HIS 105 IS THE DISTAL HISTIDINE
17
FE2
AUTHOR
HIS B:73 , HIS B:105
HIS 73 IS THE PROXIMAL HISTIDINE AND HIS 105 IS THE DISTAL HISTIDINE
18
FE3
AUTHOR
HIS C:73 , HIS C:105
HIS 73 IS THE PROXIMAL HISTIDINE AND HIS 105 IS THE DISTAL HISTIDINE
19
FE4
AUTHOR
HIS D:73 , HIS D:105
HIS 73 IS THE PROXIMAL HISTIDINE AND HIS 105 IS THE DISTAL HISTIDINE
20
FE5
AUTHOR
HIS E:73 , HIS E:105
HIS 73 IS THE PROXIMAL HISTIDINE AND HIS 105 IS THE DISTAL HISTIDINE
21
FE6
AUTHOR
HIS F:73 , HIS F:105
HIS 73 IS THE PROXIMAL HISTIDINE AND HIS 105 IS THE DISTAL HISTIDINE
22
FE7
AUTHOR
HIS G:73 , HIS G:105
HIS 73 IS THE PROXIMAL HISTIDINE AND HIS 105 IS THE DISTAL HISTIDINE
23
FE8
AUTHOR
HIS H:73 , HIS H:105
HIS 73 IS THE PROXIMAL HISTIDINE AND HIS 105 IS THE DISTAL HISTIDINE
24
FE9
AUTHOR
HIS I:73 , HIS I:105
HIS 73 IS THE PROXIMAL HISTIDINE AND HIS 105 IS THE DISTAL HISTIDINE
[
close Site info
]
SAPs(SNPs)/Variants
(1, 12)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_GLB5_PETMA_001 (T29N, chain A/B/C/D/E/F/G/H/I/J/K/L, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_GLB5_PETMA_001
*
T
30
N
GLB5_PETMA
---
---
A/B/C/D/E/F/G/H/I/J/K/L
T
29
N
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 12)
Info
All PROSITE Patterns/Profiles
1: GLOBIN (A:9-149,B:9-149,C:9-149,D:9-149,E:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GLOBIN
PS01033
Globin family profile.
GLB5_PETMA
10-150
12
A:9-149
B:9-149
C:9-149
D:9-149
E:9-149
F:9-149
G:9-149
H:9-149
I:9-149
J:9-149
K:9-149
L:9-149
[
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]
Exons
(0, 0)
Info
All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 12)
Info
All SCOP Domains
1a: SCOP_d3lhba_ (A:)
1b: SCOP_d3lhbj_ (J:)
1c: SCOP_d3lhbk_ (K:)
1d: SCOP_d3lhbl_ (L:)
1e: SCOP_d3lhbb_ (B:)
1f: SCOP_d3lhbc_ (C:)
1g: SCOP_d3lhbd_ (D:)
1h: SCOP_d3lhbe_ (E:)
1i: SCOP_d3lhbf_ (F:)
1j: SCOP_d3lhbg_ (G:)
1k: SCOP_d3lhbh_ (H:)
1l: SCOP_d3lhbi_ (I:)
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)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Globin-like
(1351)
Superfamily
:
Globin-like
(1308)
Family
:
Globins
(1157)
Protein domain
:
Lamprey globin
(5)
Sea lamprey (Petromyzon marinus) [TaxId: 7757]
(4)
1a
d3lhba_
A:
1b
d3lhbj_
J:
1c
d3lhbk_
K:
1d
d3lhbl_
L:
1e
d3lhbb_
B:
1f
d3lhbc_
C:
1g
d3lhbd_
D:
1h
d3lhbe_
E:
1i
d3lhbf_
F:
1j
d3lhbg_
G:
1k
d3lhbh_
H:
1l
d3lhbi_
I:
[
close SCOP info
]
CATH Domains
(1, 12)
Info
all CATH domains
1a: CATH_3lhbA00 (A:1-149)
1b: CATH_3lhbJ00 (J:1-149)
1c: CATH_3lhbK00 (K:1-149)
1d: CATH_3lhbL00 (L:1-149)
1e: CATH_3lhbB00 (B:1-149)
1f: CATH_3lhbC00 (C:1-149)
1g: CATH_3lhbD00 (D:1-149)
1h: CATH_3lhbE00 (E:1-149)
1i: CATH_3lhbF00 (F:1-149)
1j: CATH_3lhbG00 (G:1-149)
1k: CATH_3lhbH00 (H:1-149)
1l: CATH_3lhbI00 (I:1-149)
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(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Globin-like
(786)
Homologous Superfamily
:
Globins
(743)
Sea lamprey (Petromyzon marinus)
(4)
1a
3lhbA00
A:1-149
1b
3lhbJ00
J:1-149
1c
3lhbK00
K:1-149
1d
3lhbL00
L:1-149
1e
3lhbB00
B:1-149
1f
3lhbC00
C:1-149
1g
3lhbD00
D:1-149
1h
3lhbE00
E:1-149
1i
3lhbF00
F:1-149
1j
3lhbG00
G:1-149
1k
3lhbH00
H:1-149
1l
3lhbI00
I:1-149
[
close CATH info
]
Pfam Domains
(1, 12)
Info
all PFAM domains
1a: PFAM_Globin_3lhbL01 (L:15-124)
1b: PFAM_Globin_3lhbL02 (L:15-124)
1c: PFAM_Globin_3lhbL03 (L:15-124)
1d: PFAM_Globin_3lhbL04 (L:15-124)
1e: PFAM_Globin_3lhbL05 (L:15-124)
1f: PFAM_Globin_3lhbL06 (L:15-124)
1g: PFAM_Globin_3lhbL07 (L:15-124)
1h: PFAM_Globin_3lhbL08 (L:15-124)
1i: PFAM_Globin_3lhbL09 (L:15-124)
1j: PFAM_Globin_3lhbL10 (L:15-124)
1k: PFAM_Globin_3lhbL11 (L:15-124)
1l: PFAM_Globin_3lhbL12 (L:15-124)
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Clans
(
)
(
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(
)
(
)
Organisms
(
)
(
)
Clan
:
Globin
(291)
Family
:
Globin
(264)
Petromyzon marinus (Sea lamprey)
(1)
1a
Globin-3lhbL01
L:15-124
1b
Globin-3lhbL02
L:15-124
1c
Globin-3lhbL03
L:15-124
1d
Globin-3lhbL04
L:15-124
1e
Globin-3lhbL05
L:15-124
1f
Globin-3lhbL06
L:15-124
1g
Globin-3lhbL07
L:15-124
1h
Globin-3lhbL08
L:15-124
1i
Globin-3lhbL09
L:15-124
1j
Globin-3lhbL10
L:15-124
1k
Globin-3lhbL11
L:15-124
1l
Globin-3lhbL12
L:15-124
[
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