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1I4Y
Asym. Unit
Info
Asym.Unit (167 KB)
Biol.Unit 1 (162 KB)
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(1)
Title
:
THE CRYSTAL STRUCTURE OF PHASCOLOPSIS GOULDII WILD TYPE METHEMERYTHRIN
Authors
:
C. S. Farmer, D. M. Kurtz Jr. , Z. -J. Liu, B. C. Wang, J. Rose
Date
:
23 Feb 01 (Deposition) - 21 Mar 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D,E,F,G,H (1x)
Keywords
:
Hemerythrin, Oxygen Binding, Diiron, Four-Helix Bundle, Oxygen Storage/Transport Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
C. S. Farmer, D. M. Kurtz Jr. , Z. J. Liu, B. C. Wang, J. Rose, J. Ai, J. Sanders-Loehr
The Crystal Structures Of Phascolopsis Gouldii Wild Type And L98Y Methemerythrins: Structural And Functional Alterations Of The O2 Binding Pocket.
J. Biol. Inorg. Chem. V. 6 418 2001
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 16)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
1h: CHLORIDE ION (CLh)
2a: MU-OXO-DIIRON (FEOa)
2b: MU-OXO-DIIRON (FEOb)
2c: MU-OXO-DIIRON (FEOc)
2d: MU-OXO-DIIRON (FEOd)
2e: MU-OXO-DIIRON (FEOe)
2f: MU-OXO-DIIRON (FEOf)
2g: MU-OXO-DIIRON (FEOg)
2h: MU-OXO-DIIRON (FEOh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
8
Ligand/Ion
CHLORIDE ION
2
FEO
8
Ligand/Ion
MU-OXO-DIIRON
[
close Hetero Component info
]
Sites
(16, 16)
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: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS D:25 , HIS D:54 , LEU D:98 , ILE D:102 , ASP D:106 , FEO D:604
BINDING SITE FOR RESIDUE CL D 114
02
AC2
SOFTWARE
HIS E:25 , LEU E:28 , HIS E:54 , LEU E:98 , ASP E:106 , FEO E:605
BINDING SITE FOR RESIDUE CL E 114
03
AC3
SOFTWARE
HIS B:25 , LEU B:28 , HIS B:54 , LEU B:98 , ILE B:102 , ASP B:106 , FEO B:602
BINDING SITE FOR RESIDUE CL B 114
04
AC4
SOFTWARE
HIS C:25 , HIS C:54 , LEU C:98 , ILE C:102 , ASP C:106 , FEO C:603
BINDING SITE FOR RESIDUE CL C 114
05
AC5
SOFTWARE
HIS H:25 , LEU H:28 , HIS H:54 , LEU H:98 , ILE H:102 , ASP H:106 , FEO H:608
BINDING SITE FOR RESIDUE CL H 114
06
AC6
SOFTWARE
HIS G:25 , LEU G:28 , HIS G:54 , LEU G:98 , ILE G:102 , ASP G:106 , FEO G:607
BINDING SITE FOR RESIDUE CL G 114
07
AC7
SOFTWARE
HIS F:25 , LEU F:28 , HIS F:54 , LEU F:98 , ASP F:106 , FEO F:606
BINDING SITE FOR RESIDUE CL F 114
08
AC8
SOFTWARE
HIS A:25 , LEU A:28 , HIS A:54 , LEU A:98 , ASP A:106 , FEO A:601
BINDING SITE FOR RESIDUE CL A 114
09
AC9
SOFTWARE
HIS A:25 , HIS A:54 , PHE A:55 , GLU A:58 , HIS A:73 , HIS A:77 , HIS A:101 , ASP A:106 , CL A:114
BINDING SITE FOR RESIDUE FEO A 601
10
BC1
SOFTWARE
HIS B:25 , HIS B:54 , PHE B:55 , GLU B:58 , HIS B:73 , HIS B:77 , HIS B:101 , ASP B:106 , CL B:114
BINDING SITE FOR RESIDUE FEO B 602
11
BC2
SOFTWARE
HIS C:25 , HIS C:54 , PHE C:55 , GLU C:58 , HIS C:73 , HIS C:77 , HIS C:101 , ASP C:106 , CL C:114
BINDING SITE FOR RESIDUE FEO C 603
12
BC3
SOFTWARE
HIS D:25 , HIS D:54 , PHE D:55 , GLU D:58 , HIS D:73 , HIS D:77 , HIS D:101 , ASP D:106 , CL D:114
BINDING SITE FOR RESIDUE FEO D 604
13
BC4
SOFTWARE
HIS E:25 , HIS E:54 , PHE E:55 , GLU E:58 , HIS E:73 , HIS E:77 , HIS E:101 , ASP E:106 , CL E:114
BINDING SITE FOR RESIDUE FEO E 605
14
BC5
SOFTWARE
HIS F:25 , HIS F:54 , GLU F:58 , HIS F:73 , HIS F:77 , HIS F:101 , ASP F:106 , CL F:114
BINDING SITE FOR RESIDUE FEO F 606
15
BC6
SOFTWARE
HIS G:25 , HIS G:54 , GLU G:58 , HIS G:73 , HIS G:77 , HIS G:101 , ASP G:106 , CL G:114
BINDING SITE FOR RESIDUE FEO G 607
16
BC7
SOFTWARE
HIS H:25 , HIS H:54 , PHE H:55 , GLU H:58 , HIS H:73 , HIS H:77 , HIS H:101 , ASP H:106 , CL H:114
BINDING SITE FOR RESIDUE FEO H 608
[
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]
SAPs(SNPs)/Variants
(5, 40)
Info
(mutated residues are not available)
All SNPs/Variants
1: VAR_HEMT_PHAGO_001 (Q63E, chain A/B/C/D/E/F/G/H, )
2: VAR_HEMT_PHAGO_002 (E78D, chain A/B/C/D/E/F/G/H, )
3: VAR_HEMT_PHAGO_003 (T79G, chain A/B/C/D/E/F/G/H, )
4: VAR_HEMT_PHAGO_004 (H82N, chain A/B/C/D/E/F/G/H, )
5: VAR_HEMT_PHAGO_005 (S96A, chain A/B/C/D/E/F/G/H, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_HEMT_PHAGO_001
*
Q
64
E
HEMT_PHAGO
---
---
A/B/C/D/E/F/G/H
Q
63
E
2
UniProt
VAR_HEMT_PHAGO_002
*
E
79
D
HEMT_PHAGO
---
---
A/B/C/D/E/F/G/H
E
78
D
3
UniProt
VAR_HEMT_PHAGO_003
*
T
80
G
HEMT_PHAGO
---
---
A/B/C/D/E/F/G/H
T
79
G
4
UniProt
VAR_HEMT_PHAGO_004
*
H
83
N
HEMT_PHAGO
---
---
A/B/C/D/E/F/G/H
H
82
N
5
UniProt
VAR_HEMT_PHAGO_005
*
S
97
A
HEMT_PHAGO
---
---
A/B/C/D/E/F/G/H
S
96
A
* ID not provided by source
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 8)
Info
All PROSITE Patterns/Profiles
1: HEMERYTHRINS (A:54-77,B:54-77,C:54-77,D:54-77,E:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
HEMERYTHRINS
PS00550
Hemerythrin family signature.
HEMT_PHAGO
55-78
8
A:54-77
B:54-77
C:54-77
D:54-77
E:54-77
F:54-77
G:54-77
H:54-77
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d1i4ya_ (A:)
1b: SCOP_d1i4yb_ (B:)
1c: SCOP_d1i4yc_ (C:)
1d: SCOP_d1i4yd_ (D:)
1e: SCOP_d1i4ye_ (E:)
1f: SCOP_d1i4yf_ (F:)
1g: SCOP_d1i4yg_ (G:)
1h: SCOP_d1i4yh_ (H:)
View:
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Classes
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)
(
)
Folds
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)
(
)
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)
(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Four-helical up-and-down bundle
(308)
Superfamily
:
Hemerythrin-like
(10)
Family
:
Hemerythrin-like
(10)
Protein domain
:
Hemerythrin
(7)
Phascolopsis gouldii [TaxId: 6442]
(3)
1a
d1i4ya_
A:
1b
d1i4yb_
B:
1c
d1i4yc_
C:
1d
d1i4yd_
D:
1e
d1i4ye_
E:
1f
d1i4yf_
F:
1g
d1i4yg_
G:
1h
d1i4yh_
H:
[
close SCOP info
]
CATH Domains
(1, 8)
Info
all CATH domains
1a: CATH_1i4yA00 (A:1-113)
1b: CATH_1i4yB00 (B:1-113)
1c: CATH_1i4yC00 (C:1-113)
1d: CATH_1i4yD00 (D:1-113)
1e: CATH_1i4yE00 (E:1-113)
1f: CATH_1i4yF00 (F:1-113)
1g: CATH_1i4yG00 (G:1-113)
1h: CATH_1i4yH00 (H:1-113)
View:
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)
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)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Four Helix Bundle (Hemerythrin (Met), subunit A)
(300)
Homologous Superfamily
:
[code=1.20.120.50, no name defined]
(10)
Phascolopsis gouldii. Organism_taxid: 6442.
(2)
1a
1i4yA00
A:1-113
1b
1i4yB00
B:1-113
1c
1i4yC00
C:1-113
1d
1i4yD00
D:1-113
1e
1i4yE00
E:1-113
1f
1i4yF00
F:1-113
1g
1i4yG00
G:1-113
1h
1i4yH00
H:1-113
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
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