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2D2N
Biol. Unit 1
Info
Asym.Unit (94 KB)
Biol.Unit 1 (498 KB)
Biol.Unit 2 (86 KB)
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(1)
Title
:
STRUCTURE OF AN EXTRACELLULAR GIANT HEMOGLOBIN OF THE GUTLESS BEARD WORM OLIGOBRACHIA MASHIKOI
Authors
:
N. Numoto, T. Nakagawa, A. Kita, Y. Sasayama, Y. Fukumori, K. Miki
Date
:
12 Sep 05 (Deposition) - 25 Oct 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (6x)
Biol. Unit 2: A,B,C,D (1x)
Keywords
:
Giant Hemoglobin, Sulfide Binding, Invertebrate, Pogonophora, Oligobrachia Mashikoi, Oxygen Storage-Transport Complex
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Numoto, T. Nakagawa, A. Kita, Y. Sasayama, Y. Fukumori, K. Miki
Structure Of An Extracellular Giant Hemoglobin Of The Gutless Beard Worm Oligobrachia Mashikoi.
Proc. Natl. Acad. Sci. Usa V. 102 14521 2005
(for further references see the
PDB file header
)
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Hetero Components
(3, 72)
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)
2a: METHYL MERCURY ION (MMCa)
2b: METHYL MERCURY ION (MMCb)
2c: METHYL MERCURY ION (MMCc)
2d: METHYL MERCURY ION (MMCd)
3a: OXYGEN MOLECULE (OXYa)
3b: OXYGEN MOLECULE (OXYb)
3c: OXYGEN MOLECULE (OXYc)
3d: OXYGEN MOLECULE (OXYd)
View:
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Label:
No.
Name
Count
Type
Full Name
1
HEM
24
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
2
MMC
24
Ligand/Ion
METHYL MERCURY ION
3
OXY
24
Ligand/Ion
OXYGEN MOLECULE
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Sites
(12, 12)
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)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LEU A:45 , PHE A:46 , VAL A:49 , HIS A:62 , VAL A:66 , ALA A:69 , LEU A:90 , GLN A:93 , HIS A:94 , ARG A:97 , LEU A:99 , ASN A:103 , PHE A:104 , MET A:107 , ILE A:138 , OXY A:201 , HIS D:91 , GLN D:95
BINDING SITE FOR RESIDUE HEM A 200
02
AC2
SOFTWARE
PHE A:32 , VAL A:66 , MET A:107 , HEM A:200
BINDING SITE FOR RESIDUE OXY A 201
03
AC3
SOFTWARE
PHE B:46 , ARG B:48 , VAL B:49 , HIS B:62 , ARG B:65 , VAL B:66 , LEU B:70 , GLN B:93 , HIS B:94 , ARG B:97 , ILE B:99 , GLY B:103 , TYR B:104 , PHE B:107 , OXY B:1201 , MMC B:1500 , HIS C:93 , GLN C:97
BINDING SITE FOR RESIDUE HEM B 200
04
AC4
SOFTWARE
TRP B:32 , PHE B:46 , HIS B:62 , VAL B:66 , HEM B:200
BINDING SITE FOR RESIDUE OXY B 1201
05
AC5
SOFTWARE
ARG B:89 , GLN B:93 , LEU C:49 , PHE C:50 , GLY C:52 , HIS C:66 , ARG C:69 , VAL C:70 , GLN C:97 , HIS C:98 , ARG C:101 , VAL C:104 , HIS C:108 , PHE C:109 , MET C:112 , ILE C:143 , OXY C:2201
BINDING SITE FOR RESIDUE HEM C 200
06
AC6
SOFTWARE
HIS C:66 , VAL C:70 , HEM C:200
BINDING SITE FOR RESIDUE OXY C 2201
07
AC7
SOFTWARE
HIS A:89 , GLN A:93 , PHE D:39 , VAL D:45 , PHE D:50 , PRO D:51 , GLN D:64 , ARG D:67 , VAL D:68 , GLN D:95 , HIS D:96 , ALA D:106 , VAL D:107 , LEU D:110 , ILE D:141 , OXY D:3201
BINDING SITE FOR RESIDUE HEM D 200
08
AC8
SOFTWARE
GLN D:64 , VAL D:68 , HEM D:200
BINDING SITE FOR RESIDUE OXY D 3201
09
AC9
SOFTWARE
PHE A:32 , PHE A:46 , VAL A:49 , PHE A:59 , HIS A:62 , CYS A:63
BINDING SITE FOR RESIDUE MMC A 500
10
BC1
SOFTWARE
GLY B:69 , MET B:72 , CYS B:73 , LEU B:90 , ILE B:140 , HEM B:200
BINDING SITE FOR RESIDUE MMC B 1500
11
BC2
SOFTWARE
PHE C:36 , PHE C:50 , PHE C:63 , HIS C:66 , CYS C:67
BINDING SITE FOR RESIDUE MMC C 2500
12
BC3
SOFTWARE
CYS D:3 , LEU D:79 , ARG D:82 , CYS D:85 , TYR D:136
BINDING SITE FOR RESIDUE MMC D 3500
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(1, 18)
Info
All PROSITE Patterns/Profiles
1: GLOBIN (C:18-141)
;
View:
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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)
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SCOP Domains
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CATH Domains
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Asym.Unit (94 KB)
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Biol.Unit 1 (498 KB)
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Header - Biol.Unit 2
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