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3FW4
Biol. Unit 3
Info
Asym.Unit (89 KB)
Biol.Unit 1 (33 KB)
Biol.Unit 2 (22 KB)
Biol.Unit 3 (34 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF SIDEROCALIN (NGAL, LIPOCALIN 2) COMPLEXED WITH FERRIC 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, 9)
Info
All Hetero Components
1a: CATECHOL (CAQa)
1b: CATECHOL (CAQb)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
2e: CHLORIDE ION (CLe)
2f: CHLORIDE ION (CLf)
2g: CHLORIDE ION (CLg)
2h: CHLORIDE ION (CLh)
3a: FE (III) ION (FEa)
3b: FE (III) ION (FEb)
3c: FE (III) ION (FEc)
4a: GLYCEROL (GOLa)
4b: GLYCEROL (GOLb)
4c: GLYCEROL (GOLc)
4d: GLYCEROL (GOLd)
4e: GLYCEROL (GOLe)
4f: GLYCEROL (GOLf)
4g: GLYCEROL (GOLg)
4h: GLYCEROL (GOLh)
4i: GLYCEROL (GOLi)
4j: GLYCEROL (GOLj)
4k: GLYCEROL (GOLk)
5a: SODIUM ION (NAa)
5b: SODIUM ION (NAb)
5c: SODIUM ION (NAc)
5d: SODIUM ION (NAd)
5e: SODIUM ION (NAe)
5f: SODIUM ION (NAf)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CAQ
1
Ligand/Ion
CATECHOL
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
FE
-1
Ligand/Ion
FE (III) ION
4
GOL
8
Ligand/Ion
GLYCEROL
5
NA
-1
Ligand/Ion
SODIUM ION
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Sites
(14, 14)
Info
All Sites
01: AC4 (SOFTWARE)
02: BC3 (SOFTWARE)
03: BC4 (SOFTWARE)
04: BC5 (SOFTWARE)
05: BC7 (SOFTWARE)
06: BC8 (SOFTWARE)
07: BC9 (SOFTWARE)
08: CC1 (SOFTWARE)
09: CC2 (SOFTWARE)
10: CC3 (SOFTWARE)
11: CC4 (SOFTWARE)
12: CC5 (SOFTWARE)
13: CC6 (SOFTWARE)
14: CC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC4
SOFTWARE
LYS A:142 , GLU A:143 , ASP A:173 , GLN C:20
BINDING SITE FOR RESIDUE GOL A 184
02
BC3
SOFTWARE
CAQ C:180
BINDING SITE FOR RESIDUE FE C 179
03
BC4
SOFTWARE
PHE C:123 , LYS C:125 , LYS C:134 , FE C:179 , GOL C:188
BINDING SITE FOR RESIDUE CAQ C 180
04
BC5
SOFTWARE
GLN A:117 , HOH C:272
BINDING SITE FOR RESIDUE NA C 181
05
BC7
SOFTWARE
SER C:146
BINDING SITE FOR RESIDUE NA C 183
06
BC8
SOFTWARE
HOH C:266
BINDING SITE FOR RESIDUE NA C 184
07
BC9
SOFTWARE
TRP C:79 , ARG C:81
BINDING SITE FOR RESIDUE GOL C 185
08
CC1
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:211 , HOH C:300 , HOH C:320
BINDING SITE FOR RESIDUE GOL C 186
09
CC2
SOFTWARE
PRO C:85 , LEU C:94 , ILE C:97 , TYR C:106 , HOH C:326
BINDING SITE FOR RESIDUE GOL C 187
10
CC3
SOFTWARE
ALA C:40 , LYS C:125 , TYR C:132 , CAQ C:180 , HOH C:297
BINDING SITE FOR RESIDUE GOL C 188
11
CC4
SOFTWARE
LEU C:18 , GLN C:19 , GLN C:20 , VAL C:111 , SER C:112 , HOH C:239 , HOH C:259
BINDING SITE FOR RESIDUE GOL C 189
12
CC5
SOFTWARE
ARG C:130
BINDING SITE FOR RESIDUE GOL C 190
13
CC6
SOFTWARE
LYS C:59 , GLU C:60 , ASP C:61
BINDING SITE FOR RESIDUE GOL C 3731
14
CC7
SOFTWARE
GLN B:23 , ASN C:116 , ARG C:140 , HOH C:279
BINDING SITE FOR RESIDUE GOL C 191
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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, 1)
Info
All PROSITE Patterns/Profiles
1: LIPOCALIN (C:21-34)
;
View:
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Label:
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)
Info
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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_d3fw4a_ (A:)
1b: SCOP_d3fw4b_ (B:)
1c: SCOP_d3fw4c_ (C:)
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Protein Domains
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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
d3fw4a_
A:
1b
d3fw4b_
B:
1c
d3fw4c_
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 (89 KB)
Header - Asym.Unit
Biol.Unit 1 (33 KB)
Header - Biol.Unit 1
Biol.Unit 2 (22 KB)
Header - Biol.Unit 2
Biol.Unit 3 (34 KB)
Header - Biol.Unit 3
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