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3FW5
Biol. Unit 3
Info
Asym.Unit (94 KB)
Biol.Unit 1 (34 KB)
Biol.Unit 2 (26 KB)
Biol.Unit 3 (35 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF SIDEROCALIN (NGAL, LIPOCALIN 2) COMPLEXED WITH FERRIC 4-METHYL-CATECHOL
Authors
:
M. C. Clifton, R. K. Strong
Date
:
16 Jan 09 (Deposition) - 05 May 10 (Release) - 11 Aug 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Keywords
:
8-Stranded Anti-Parallel Beta Barrel, 310-Helix, Glycoprotein, Pyrrolidone Carboxylic Acid, Secreted, Transport Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. Bao, M. Clifton, T. M. Hoette, K. Mori, S. X. Deng, A. Qiu, M. Viltard, D. Williams, N. Paragas, T. Leete, R. Kulkarni, X. Li, B. Lee, A. Kalandadze, A. J. Ratner, J. C. Pizarro, K. M. Schmidt-Ott, D. W. Landry, K. N. Raymond, R. K. Strong, J. Barasch
Iron Traffics In Circulation Bound To A Siderocalin (Ngal)-Catechol Complex.
Nat. Chem. Biol. V. 6 602 2010
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Hetero Components
(2, 6)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
2a: FE (III) ION (FEa)
2b: FE (III) ION (FEb)
2c: FE (III) ION (FEc)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
3g: GLYCEROL (GOLg)
3h: GLYCEROL (GOLh)
3i: GLYCEROL (GOLi)
4a: 4-METHYLCATECHOL (MCTa)
4b: 4-METHYLCATECHOL (MCTb)
4c: 4-METHYLCATECHOL (MCTc)
5a: SODIUM ION (NAa)
5b: SODIUM ION (NAb)
5c: SODIUM ION (NAc)
5d: SODIUM ION (NAd)
5e: SODIUM ION (NAe)
5f: SODIUM ION (NAf)
5g: SODIUM ION (NAg)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
FE
-1
Ligand/Ion
FE (III) ION
3
GOL
5
Ligand/Ion
GLYCEROL
4
MCT
1
Ligand/Ion
4-METHYLCATECHOL
5
NA
-1
Ligand/Ion
SODIUM ION
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Sites
(12, 12)
Info
All Sites
01: AC5 (SOFTWARE)
02: AC6 (SOFTWARE)
03: AC7 (SOFTWARE)
04: BC2 (SOFTWARE)
05: BC3 (SOFTWARE)
06: BC4 (SOFTWARE)
07: BC5 (SOFTWARE)
08: BC6 (SOFTWARE)
09: BC7 (SOFTWARE)
10: BC8 (SOFTWARE)
11: BC9 (SOFTWARE)
12: CC1 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC5
SOFTWARE
ASN A:114 , HIS A:118 , HOH A:375 , ASN C:116
BINDING SITE FOR RESIDUE GOL A 185
02
AC6
SOFTWARE
PRO A:162 , ASN A:164 , HIS A:165 , HOH A:348 , LYS C:75
BINDING SITE FOR RESIDUE GOL A 186
03
AC7
SOFTWARE
GLN A:117 , HOH A:347 , ASN C:114
BINDING SITE FOR RESIDUE GOL A 187
04
BC2
SOFTWARE
MCT C:180
BINDING SITE FOR RESIDUE FE C 179
05
BC3
SOFTWARE
TYR C:106 , PHE C:123 , LYS C:125 , TYR C:132 , LYS C:134 , FE C:179 , GOL C:188 , HOH C:191
BINDING SITE FOR RESIDUE MCT C 180
06
BC4
SOFTWARE
SER C:112 , HIS C:118
BINDING SITE FOR RESIDUE NA C 181
07
BC5
SOFTWARE
LYS C:157 , HOH C:351
BINDING SITE FOR RESIDUE NA C 182
08
BC6
SOFTWARE
PHE C:22 , ASP C:24 , PRO C:85 , GLN C:88 , PRO C:89 , GLY C:90 , GLU C:91 , PHE C:92 , HOH C:205 , HOH C:240 , HOH C:242
BINDING SITE FOR RESIDUE GOL C 185
09
BC7
SOFTWARE
THR C:82 , GLY C:95 , ASN C:96 , TYR C:100
BINDING SITE FOR RESIDUE GOL C 186
10
BC8
SOFTWARE
THR C:93 , LEU C:94 , ILE C:97 , SER C:105 , TYR C:106 , HOH C:335
BINDING SITE FOR RESIDUE GOL C 187
11
BC9
SOFTWARE
LYS C:125 , TYR C:132 , MCT C:180
BINDING SITE FOR RESIDUE GOL C 188
12
CC1
SOFTWARE
LYS C:59 , GLU C:60 , ASP C:61
BINDING SITE FOR RESIDUE GOL C 189
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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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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: LIPOCALIN (C:21-34)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LIPOCALIN
PS00213
Lipocalin signature.
NGAL_HUMAN
41-54
1
-
-
C:21-34
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Exons
(0, 0)
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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, 3)
Info
All SCOP Domains
1a: SCOP_d3fw5a_ (A:)
1b: SCOP_d3fw5b_ (B:)
1c: SCOP_d3fw5c_ (C:)
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Protein Domains
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Organisms
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)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Lipocalins
(514)
Superfamily
:
Lipocalins
(514)
Family
:
Retinol binding protein-like
(261)
Protein domain
:
Neutrophil gelatinase-associated lipocalin (NGAL)
(28)
Human (Homo sapiens) [TaxId: 9606]
(28)
1a
d3fw5a_
A:
1b
d3fw5b_
B:
1c
d3fw5c_
C:
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CATH Domains
(0, 0)
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Pfam Domains
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Chain C
Asymmetric Unit 1
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Show PDB file:
Asym.Unit (94 KB)
Header - Asym.Unit
Biol.Unit 1 (34 KB)
Header - Biol.Unit 1
Biol.Unit 2 (26 KB)
Header - Biol.Unit 2
Biol.Unit 3 (35 KB)
Header - Biol.Unit 3
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