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2ZS1
Biol. Unit 1
Info
Asym.Unit (117 KB)
Biol.Unit 1 (638 KB)
Biol.Unit 2 (321 KB)
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(1)
Title
:
STRUCTURAL BASIS FOR THE HETEROTROPIC AND HOMOTROPIC INTERACTIONS OF INVERTEBRATE GIANT HEMOGLOBIN
Authors
:
N. Numoto, T. Nakagawa, A. Kita, Y. Sasayama, Y. Fukumori, K. Miki
Date
:
02 Sep 08 (Deposition) - 21 Oct 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.70
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (6x)
Biol. Unit 2: A,B,C,D (3x)
Keywords
:
Hemoglobin, Annelida, Magnesium, Cooperativity, Heme, Iron, Metal- Binding, Oxygen Transport, Secreted, Transport, Oxygen Storage
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Numoto, T. Nakagawa, A. Kita, Y. Sasayama, Y. Fukumori, K. Miki
Structural Basis For The Heterotropic And Homotropic Interactions Of Invertebrate Giant Hemoglobin
Biochemistry V. 47 11231 2008
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Hetero Components
(3, 84)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
3a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
3b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
3c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
3d: PROTOPORPHYRIN IX CONTAINING FE (HEMd)
4a: MAGNESIUM ION (MGa)
5a: OXYGEN MOLECULE (OXYa)
5b: OXYGEN MOLECULE (OXYb)
5c: OXYGEN MOLECULE (OXYc)
5d: OXYGEN MOLECULE (OXYd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
GOL
36
Ligand/Ion
GLYCEROL
3
HEM
24
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
4
MG
-1
Ligand/Ion
MAGNESIUM ION
5
OXY
24
Ligand/Ion
OXYGEN MOLECULE
[
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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
LEU A:45 , PHE A:46 , VAL A:49 , HIS A:62 , ARG A:65 , ALA A:69 , GLN A:93 , HIS A:94 , ARG A:97 , LEU A:99 , ASN A:103 , MET A:107 , TYR A:131 , ILE A:138 , OXY A:201 , GOL A:6001 , HOH A:7009 , HOH A:7094 , HOH A:7109 , HOH A:7124 , HIS D:91 , GLN D:95
BINDING SITE FOR RESIDUE HEM A 200
02
AC2
SOFTWARE
PHE A:32 , PHE A:46 , HIS A:62 , VAL A:66 , HEM A:200
BINDING SITE FOR RESIDUE OXY A 201
03
AC3
SOFTWARE
GLY A:48 , ARG A:97 , HEM A:200 , HOH A:7159 , HOH D:6136
BINDING SITE FOR RESIDUE GOL A6001
04
AC4
SOFTWARE
GLY A:40 , SER A:41 , ARG A:43 , ALA A:44 , HOH A:7022 , HOH A:7092 , HOH A:7113
BINDING SITE FOR RESIDUE GOL A6002
05
AC5
SOFTWARE
PHE A:104 , ALA A:105 , GLU A:132 , ALA A:135 , HOH A:7011 , HOH A:7035 , HOH A:7169
BINDING SITE FOR RESIDUE GOL A6004
06
AC6
SOFTWARE
GLN A:79 , GLN A:80 , ALA A:81 , THR A:82 , LEU D:62
BINDING SITE FOR RESIDUE GOL A6005
07
AC7
SOFTWARE
ARG A:4 , LYS A:11 , ARG C:27
BINDING SITE FOR RESIDUE CL A7001
08
AC8
SOFTWARE
LEU B:45 , PHE B:46 , ARG B:48 , VAL B:49 , HIS B:62 , ARG B:65 , LEU B:70 , HIS B:94 , ILE B:99 , GLY B:103 , TYR B:104 , PHE B:107 , OXY B:201 , HOH B:5026 , HOH B:5035 , HOH B:5064 , HIS C:93 , GLN C:97
BINDING SITE FOR RESIDUE HEM B 200
09
AC9
SOFTWARE
TRP B:32 , PHE B:46 , HIS B:62 , VAL B:66 , HEM B:200
BINDING SITE FOR RESIDUE OXY B 201
10
BC1
SOFTWARE
ASP B:55 , HOH B:5077 , HOH B:5092 , HOH B:5094 , HOH B:5106 , HOH C:327
BINDING SITE FOR RESIDUE MG B5002
11
BC2
SOFTWARE
ARG B:89 , GLN B:93 , LEU C:49 , PHE C:50 , VAL C:53 , HIS C:66 , ARG C:69 , HIS C:98 , ARG C:101 , HIS C:108 , PHE C:109 , MET C:112 , ILE C:143 , OXY C:201 , HOH C:207 , HOH C:222 , HOH C:251 , HOH C:306 , HOH C:317
BINDING SITE FOR RESIDUE HEM C 200
12
BC3
SOFTWARE
PHE C:36 , PHE C:50 , HIS C:66 , VAL C:70 , HEM C:200
BINDING SITE FOR RESIDUE OXY C 201
13
BC4
SOFTWARE
HIS A:89 , GLN A:93 , MET D:49 , PHE D:50 , PRO D:51 , GLN D:64 , ARG D:67 , LEU D:92 , GLN D:95 , HIS D:96 , ILE D:99 , ALA D:106 , VAL D:107 , LEU D:110 , ILE D:141 , OXY D:201 , HOH D:6033 , HOH D:6106 , HOH D:6126 , HOH D:6140
BINDING SITE FOR RESIDUE HEM D 200
14
BC5
SOFTWARE
PHE D:36 , PHE D:50 , GLN D:64 , VAL D:68 , HEM D:200
BINDING SITE FOR RESIDUE OXY D 201
15
BC6
SOFTWARE
GLU D:1 , ARG D:5 , THR D:80 , ARG D:82
BINDING SITE FOR RESIDUE GOL D6003
16
BC7
SOFTWARE
GLY A:19 , ALA A:21 , ASP D:16 , ASN D:77
BINDING SITE FOR RESIDUE GOL D6006
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 18)
Info
All PROSITE Patterns/Profiles
1: GLOBIN (C:18-141)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GLOBIN
PS01033
Globin family profile.
GLBA1_OLIMA
22-151
6
A:6-135
GLBB1_OLIMA
27-154
6
D:11-138
GLBB2_OLIMA
34-157
6
C:18-141
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d2zs1a_ (A:)
1b: SCOP_d2zs1b_ (B:)
1c: SCOP_d2zs1c_ (C:)
1d: SCOP_d2zs1d_ (D:)
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Protein Domains
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Organisms
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Class
:
All alpha proteins
(14657)
Fold
:
Globin-like
(1351)
Superfamily
:
Globin-like
(1308)
Family
:
automated matches
(42)
Protein domain
:
automated matches
(42)
Oligobrachia mashikoi [TaxId: 55676]
(4)
1a
d2zs1a_
A:
1b
d2zs1b_
B:
1c
d2zs1c_
C:
1d
d2zs1d_
D:
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
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Sorry, no Info available
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Protein & NOT Variant
Protein & NOT Site
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Chain C
Chain D
Asymmetric Unit 1
Asymmetric Unit 2
Asymmetric Unit 3
Asymmetric Unit 4
Asymmetric Unit 5
Asymmetric Unit 6
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
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Show PDB file:
Asym.Unit (117 KB)
Header - Asym.Unit
Biol.Unit 1 (638 KB)
Header - Biol.Unit 1
Biol.Unit 2 (321 KB)
Header - Biol.Unit 2
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