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1ODB
Asym. Unit
Info
Asym.Unit (102 KB)
Biol.Unit 1 (33 KB)
Biol.Unit 2 (33 KB)
Biol.Unit 3 (34 KB)
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(1)
Title
:
THE CRYSTAL STRUCTURE OF HUMAN S100A12 - COPPER COMPLEX
Authors
:
O. V. Moroz, A. A. Antson, S. J. Grist, N. J. Maitland, G. G. Dodson, K. S. W E. M. Lukanidin, I. B. Bronstein
Date
:
15 Feb 03 (Deposition) - 12 Jun 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.19
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: C,D (1x)
Biol. Unit 2: E,F (1x)
Biol. Unit 3: A,B (1x)
Keywords
:
Metal-Binding Protein, Calcium-Binding Protein, S100 Protein, Ef-Hand, Calcium Binding, Host-Parasite Response
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
O. V. Moroz, A. A. Antson, S. J. Grist, N. J. Maitland, G. G. Dodson, K. S. Wilson, E. M. Lukanidin, I. B. Bronstein
Structure Of The Human S100A12-Copper Complex: Implications For Host-Parasite Defence
Acta Crystallogr. , Sect. D V. 59 859 2003
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 18)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
1i: CALCIUM ION (CAi)
1j: CALCIUM ION (CAj)
1k: CALCIUM ION (CAk)
1l: CALCIUM ION (CAl)
2a: COPPER (II) ION (CUa)
2b: COPPER (II) ION (CUb)
2c: COPPER (II) ION (CUc)
2d: COPPER (II) ION (CUd)
2e: COPPER (II) ION (CUe)
2f: COPPER (II) ION (CUf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
12
Ligand/Ion
CALCIUM ION
2
CU
6
Ligand/Ion
COPPER (II) ION
[
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]
Sites
(18, 18)
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)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:15 , HIS B:85 , HIS B:89 , GLU E:55 , GLN E:58
BINDING SITE FOR RESIDUE CU A1091
02
AC2
SOFTWARE
SER A:18 , LYS A:21 , HIS A:23 , THR A:26 , GLU A:31 , HOH A:2059
BINDING SITE FOR RESIDUE CA A1092
03
AC3
SOFTWARE
ASP A:61 , ASN A:63 , ASP A:65 , GLN A:67 , GLU A:72 , HOH A:2061
BINDING SITE FOR RESIDUE CA A1093
04
AC4
SOFTWARE
HIS A:85 , HIS A:89 , HIS B:15 , ASP B:25
BINDING SITE FOR RESIDUE CU B1091
05
AC5
SOFTWARE
SER B:18 , LYS B:21 , HIS B:23 , THR B:26 , GLU B:31 , HOH B:2026
BINDING SITE FOR RESIDUE CA B1092
06
AC6
SOFTWARE
ASP B:61 , ASN B:63 , ASP B:65 , GLN B:67 , GLU B:72 , HOH B:2059
BINDING SITE FOR RESIDUE CA B1093
07
AC7
SOFTWARE
HIS C:15 , ASP C:25 , HIS D:85 , HIS D:89
BINDING SITE FOR RESIDUE CU C1091
08
AC8
SOFTWARE
SER C:18 , LYS C:21 , HIS C:23 , THR C:26 , GLU C:31 , HOH C:2021
BINDING SITE FOR RESIDUE CA C1092
09
AC9
SOFTWARE
ASP C:61 , ASN C:63 , ASP C:65 , GLN C:67 , GLU C:72 , HOH C:2044
BINDING SITE FOR RESIDUE CA C1093
10
BC1
SOFTWARE
HIS C:85 , HIS C:89 , HIS D:15 , ASP D:25
BINDING SITE FOR RESIDUE CU D1091
11
BC2
SOFTWARE
SER D:18 , LYS D:21 , HIS D:23 , THR D:26 , GLU D:31 , HOH D:2049
BINDING SITE FOR RESIDUE CA D1092
12
BC3
SOFTWARE
ASP D:61 , ASN D:63 , ASP D:65 , GLN D:67 , GLU D:72 , HOH D:2050
BINDING SITE FOR RESIDUE CA D1093
13
BC4
SOFTWARE
HIS E:15 , ASP E:25 , HIS F:85 , HIS F:89
BINDING SITE FOR RESIDUE CU E1091
14
BC5
SOFTWARE
SER E:18 , LYS E:21 , HIS E:23 , THR E:26 , GLU E:31 , HOH E:2055
BINDING SITE FOR RESIDUE CA E1092
15
BC6
SOFTWARE
ASP E:61 , ASN E:63 , ASP E:65 , GLN E:67 , GLU E:72 , HOH E:2059
BINDING SITE FOR RESIDUE CA E1093
16
BC7
SOFTWARE
HIS E:85 , HIS E:89 , HIS F:15 , ASP F:25
BINDING SITE FOR RESIDUE CU F1091
17
BC8
SOFTWARE
SER F:18 , LYS F:21 , HIS F:23 , THR F:26 , GLU F:31
BINDING SITE FOR RESIDUE CA F1092
18
BC9
SOFTWARE
ASP F:61 , ASN F:63 , ASP F:65 , GLN F:67 , GLU F:72 , HOH F:2021
BINDING SITE FOR RESIDUE CA F1093
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(2, 12)
Info
All PROSITE Patterns/Profiles
1: EF_HAND_2 (A:48-83,B:48-83,C:48-83,D:48-83,E:...)
2: S100_CABP (A:56-77,B:56-77,C:56-77,D:56-77,E:...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
EF_HAND_2
PS50222
EF-hand calcium-binding domain profile.
S10AC_HUMAN
49-84
6
A:48-83
B:48-83
C:48-83
D:48-83
E:48-83
F:48-83
2
S100_CABP
PS00303
S-100/ICaBP type calcium binding protein signature.
S10AC_HUMAN
57-78
6
A:56-77
B:56-77
C:56-77
D:56-77
E:56-77
F:56-77
[
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]
Exons
(2, 12)
Info
All Exons
Exon 1.2 (A:0-45 | B:0-45 | C:0-45 | D:0-45 ...)
Exon 1.4a (A:46-90 | B:46-90 | C:46-90 | D:46...)
View:
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All Exon Boundaries
1: Boundary 1.1a/1.2
2: Boundary 1.2/1.4a
3: Boundary 1.4a/-
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
1.1a
ENST00000368737
1a
ENSE00001935189
chr1:
153348125-153348028
98
S10AC_HUMAN
-
0
0
-
-
1.2
ENST00000368737
2
ENSE00001072568
chr1:
153347088-153346931
158
S10AC_HUMAN
1-46
46
6
A:0-45
B:0-45
C:0-45
D:0-45
E:0-45
F:0-45
46
46
46
46
46
46
1.4a
ENST00000368737
4a
ENSE00001447874
chr1:
153346443-153346184
260
S10AC_HUMAN
47-92
46
6
A:46-90
B:46-90
C:46-90
D:46-90
E:46-90
F:46-89
45
45
45
45
45
44
[
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]
SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d1odba_ (A:)
1b: SCOP_d1odbb_ (B:)
1c: SCOP_d1odbc_ (C:)
1d: SCOP_d1odbd_ (D:)
1e: SCOP_d1odbe_ (E:)
1f: SCOP_d1odbf_ (F:)
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)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
EF Hand-like
(739)
Superfamily
:
EF-hand
(657)
Family
:
S100 proteins
(101)
Protein domain
:
Calcyclin (S100)
(69)
Human (Homo sapiens), calgranulin C, s100a12 [TaxId: 9606]
(3)
1a
d1odba_
A:
1b
d1odbb_
B:
1c
d1odbc_
C:
1d
d1odbd_
D:
1e
d1odbe_
E:
1f
d1odbf_
F:
[
close SCOP info
]
CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1odbA00 (A:0-90)
1b: CATH_1odbB00 (B:0-90)
1c: CATH_1odbC00 (C:0-90)
1d: CATH_1odbD00 (D:0-90)
1e: CATH_1odbE00 (E:0-90)
1f: CATH_1odbF00 (F:0-89)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Recoverin; domain 1
(474)
Homologous Superfamily
:
EF-hand
(412)
Human (Homo sapiens)
(106)
1a
1odbA00
A:0-90
1b
1odbB00
B:0-90
1c
1odbC00
C:0-90
1d
1odbD00
D:0-90
1e
1odbE00
E:0-90
1f
1odbF00
F:0-89
[
close CATH info
]
Pfam Domains
(1, 6)
Info
all PFAM domains
1a: PFAM_S_100_1odbF01 (F:3-46)
1b: PFAM_S_100_1odbF02 (F:3-46)
1c: PFAM_S_100_1odbF03 (F:3-46)
1d: PFAM_S_100_1odbF04 (F:3-46)
1e: PFAM_S_100_1odbF05 (F:3-46)
1f: PFAM_S_100_1odbF06 (F:3-46)
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Clan
:
EF_hand
(270)
Family
:
S_100
(63)
Homo sapiens (Human)
(41)
1a
S_100-1odbF01
F:3-46
1b
S_100-1odbF02
F:3-46
1c
S_100-1odbF03
F:3-46
1d
S_100-1odbF04
F:3-46
1e
S_100-1odbF05
F:3-46
1f
S_100-1odbF06
F:3-46
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