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1UX9
Asym. Unit
Info
Asym.Unit (60 KB)
Biol.Unit 1 (29 KB)
Biol.Unit 2 (28 KB)
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(1)
Title
:
MAPPING PROTEIN MATRIX CAVITIES IN HUMAN CYTOGLOBIN THROUGH XE ATOM BINDING: A CRYSTALLOGRAPHIC INVESTIGATION
Authors
:
D. De Sanctis, S. Dewilde, A. Pesce, L. Moens, P. Ascenzi, T. Hankeln, T. Burmester, M. Bolognesi
Date
:
23 Feb 04 (Deposition) - 01 Jun 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.40
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Oxygen Transport, Oxygen Storage/Transport, Heme, Transport
(Keyword Search:
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Gene Ontology, PubMed, Web (Google)
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Reference
:
D. De Sanctis, S. Dewilde, A. Pesce, L. Moens, P. Ascenzi, T. Hankeln, T. Burmester, M. Bolognesi
Mapping Protein Matrix Cavities In Human Cytoglobin Through Xe Atom Binding
Biochem. Biophys. Res. Commun. V. 316 1217 2004
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Hetero Components
(3, 11)
Info
All Hetero Components
1a: HEXACYANOFERRATE(3-) (FC6a)
1b: HEXACYANOFERRATE(3-) (FC6b)
2a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
2b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
3a: XENON (XEa)
3b: XENON (XEb)
3c: XENON (XEc)
3d: XENON (XEd)
3e: XENON (XEe)
3f: XENON (XEf)
3g: XENON (XEg)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FC6
2
Ligand/Ion
HEXACYANOFERRATE(3-)
2
HEM
2
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
3
XE
7
Ligand/Ion
XENON
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
TYR A:59 , PHE A:60 , GLN A:77 , HIS A:81 , ARG A:84 , ALA A:88 , ALA A:112 , HIS A:113 , HIS A:117 , VAL A:119 , TYR A:123 , PHE A:124 , HOH A:2007 , HOH A:2011
BINDING SITE FOR RESIDUE HEM A1172
2
AC2
SOFTWARE
GLY A:42 , ILE A:45 , MET A:86
BINDING SITE FOR RESIDUE XE A1173
3
AC3
SOFTWARE
LEU A:89
BINDING SITE FOR RESIDUE XE A1174
4
AC4
SOFTWARE
TRP A:31 , LEU A:34 , ILE A:45 , MET A:86 , ILE A:131
BINDING SITE FOR RESIDUE XE A1175
5
AC5
SOFTWARE
LYS A:125 , ARG A:155 , GLY A:156 , TYR A:159 , HOH A:2022 , PHE B:53 , PRO B:54 , SER B:55
BINDING SITE FOR RESIDUE FC6 A1176
6
AC6
SOFTWARE
ALA A:140 , SER A:141 , TYR B:59 , PHE B:60 , GLN B:77 , LYS B:80 , HIS B:81 , ARG B:84 , VAL B:85 , ALA B:88 , LEU B:89 , HIS B:113 , HIS B:117 , VAL B:119 , PHE B:124 , HOH B:2015
BINDING SITE FOR RESIDUE HEM B1172
7
AC7
SOFTWARE
PHE A:53 , PRO A:54 , SER A:55 , LYS B:125 , ARG B:155 , TYR B:159
BINDING SITE FOR RESIDUE FC6 B1176
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: GLOBIN (A:19-158,B:19-158)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GLOBIN
PS01033
Globin family profile.
CYGB_HUMAN
19-158
2
A:19-158
B:19-158
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Exons
(3, 6)
Info
All Exons
Exon 1.1 (A:18-48 | B:18-48)
Exon 1.2 (A:48-125 | B:48-125)
Exon 1.3 (A:126-171 | B:126-171)
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All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/1.2
3: Boundary 1.2/1.3
4: Boundary 1.3/1.4
View:
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
ENST00000293230
1
ENSE00001246500
chr17:
74533966-74533482
485
CYGB_HUMAN
1-48
48
2
A:18-48
B:18-48
31
31
1.2
ENST00000293230
2
ENSE00001058643
chr17:
74527773-74527542
232
CYGB_HUMAN
48-125
78
2
A:48-125
B:48-125
78
78
1.3
ENST00000293230
3
ENSE00001118062
chr17:
74527224-74527061
164
CYGB_HUMAN
126-180
55
2
A:126-171
B:126-171
46
46
1.4
ENST00000293230
4
ENSE00001193939
chr17:
74524693-74523461
1233
CYGB_HUMAN
180-190
11
0
-
-
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d1ux9a_ (A:)
1b: SCOP_d1ux9b_ (B:)
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Classes
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)
(
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Folds
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)
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)
Superfamilies
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)
(
)
Families
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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
:
Cytoglobin
(8)
Human (Homo sapiens) [TaxId: 9606]
(8)
1a
d1ux9a_
A:
1b
d1ux9b_
B:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_1ux9A00 (A:18-171)
1b: CATH_1ux9B00 (B:18-171)
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)
Organisms
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)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Globin-like
(786)
Homologous Superfamily
:
Globins
(743)
Homo sapiens. Organism_taxid: 9606.
(3)
1a
1ux9A00
A:18-171
1b
1ux9B00
B:18-171
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Pfam Domains
(0, 0)
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all PFAM domains
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Asymmetric Unit 1
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Asym.Unit (60 KB)
Header - Asym.Unit
Biol.Unit 1 (29 KB)
Header - Biol.Unit 1
Biol.Unit 2 (28 KB)
Header - Biol.Unit 2
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