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3HCM
Asym. Unit
Info
Asym.Unit (39 KB)
Biol.Unit 1 (34 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN S100B IN COMPLEX WITH S45
Authors
:
S. Mangani, L. Cesari
Date
:
06 May 09 (Deposition) - 02 Feb 10 (Release) - 02 Mar 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
S100B, Calcium Binding Protein, Inhibitor, Calcium, Cytoplasm, Metal-Binding, Nucleus, Metal Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Agamennone, L. Cesari, D. Lalli, E. Turlizzi, R. Del Conte, P. Turano, S. Mangani, A. Padova
Fragmenting The S100B-P53 Interaction: Combined Virtual/Biophysical Screening Approaches To Identify Ligands
Chemmedchem V. 5 428 2010
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Hetero Components
(3, 7)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
3a: (3R)-3-[3-(4-CHLOROPHENYL)-1,2,4-O... (S45a)
3b: (3R)-3-[3-(4-CHLOROPHENYL)-1,2,4-O... (S45b)
View:
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Label:
No.
Name
Count
Type
Full Name
1
ACT
1
Ligand/Ion
ACETATE ION
2
CA
4
Ligand/Ion
CALCIUM ION
3
S45
2
Ligand/Ion
(3R)-3-[3-(4-CHLOROPHENYL)-1,2,4-OXADIAZOL-5-YL]PIPERIDINE
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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)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
SER A:18 , GLU A:21 , ASP A:23 , LYS A:26 , GLU A:31
BINDING SITE FOR RESIDUE CA A 92
2
AC2
SOFTWARE
ASP A:61 , ASP A:63 , ASP A:65 , GLU A:67 , GLU A:72 , HOH A:139
BINDING SITE FOR RESIDUE CA A 93
3
AC3
SOFTWARE
LEU A:44 , LEU A:60 , PHE A:76 , MET A:79 , HOH A:143
BINDING SITE FOR RESIDUE S45 A 94
4
AC4
SOFTWARE
GLU A:45
BINDING SITE FOR RESIDUE ACT A 95
5
AC5
SOFTWARE
SER B:18 , GLU B:21 , ASP B:23 , LYS B:26 , GLU B:31 , HOH B:123
BINDING SITE FOR RESIDUE CA B 92
6
AC6
SOFTWARE
ASP B:61 , ASP B:63 , ASP B:65 , GLU B:67 , GLU B:72 , HOH B:131
BINDING SITE FOR RESIDUE CA B 93
7
AC7
SOFTWARE
LEU B:44 , GLU B:45 , VAL B:56 , PHE B:76 , MET B:79 , HOH B:127
BINDING SITE FOR RESIDUE S45 B 94
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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
(3, 6)
Info
All PROSITE Patterns/Profiles
1: EF_HAND_2 (A:48-83,B:48-83)
2: S100_CABP (A:56-77,B:56-77)
3: EF_HAND_1 (A:61-73,B:61-73)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
EF_HAND_2
PS50222
EF-hand calcium-binding domain profile.
S100B_HUMAN
49-84
2
A:48-83
B:48-83
2
S100_CABP
PS00303
S-100/ICaBP type calcium binding protein signature.
S100B_HUMAN
57-78
2
A:56-77
B:56-77
3
EF_HAND_1
PS00018
EF-hand calcium-binding domain.
S100B_HUMAN
62-74
2
A:61-73
B:61-73
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Exons
(2, 4)
Info
All Exons
Exon 1.2a (A:0-45 | B:0-45)
Exon 1.4a (A:46-89 | B:46-90)
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All Exon Boundaries
1: Boundary -/1.2a
2: Boundary 1.2a/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
1.2a
ENST00000397648
2a
ENSE00001529559
chr21:
48022806-48022191
616
S100B_HUMAN
1-46
46
2
A:0-45
B:0-45
46
46
1.4a
ENST00000397648
4a
ENSE00001529558
chr21:
48019416-48019194
223
S100B_HUMAN
47-92
46
2
A:46-89
B:46-90
44
45
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SCOP Domains
(1, 2)
Info
All SCOP Domains
1a: SCOP_d3hcma_ (A:)
1b: SCOP_d3hcmb_ (B:)
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Protein Domains
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Organisms
(
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(
)
Class
:
All alpha proteins
(14657)
Fold
:
EF Hand-like
(739)
Superfamily
:
EF-hand
(657)
Family
:
S100 proteins
(101)
Protein domain
:
automated matches
(32)
Human (Homo sapiens) [TaxId: 9606]
(30)
1a
d3hcma_
A:
1b
d3hcmb_
B:
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CATH Domains
(1, 2)
Info
all CATH domains
1a: CATH_3hcmB00 (B:0-90)
1b: CATH_3hcmA00 (A:0-89)
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Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Recoverin; domain 1
(474)
Homologous Superfamily
:
EF-hand
(412)
Human (Homo sapiens)
(106)
1a
3hcmB00
B:0-90
1b
3hcmA00
A:0-89
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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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