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3HWE
Asym. Unit
Info
Asym.Unit (96 KB)
Biol.Unit 1 (32 KB)
Biol.Unit 2 (30 KB)
Biol.Unit 3 (32 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF SIDEROCALIN (NGAL, LIPOCALIN 2) COMPLEXED WITH FE-BISHACAM
Authors
:
M. C. Clifton
Date
:
17 Jun 09 (Deposition) - 02 Jun 10 (Release) - 02 Jun 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Keywords
:
Lipocalin, Siderophore, Beta-Barrel, Disulfide Bond, Glycoprotein, Pyrrolidone Carboxylic Acid, Secreted, Transport Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. C. Clifton, J. C. Pizarro, R. Abergel, T. M. Hoette, V. Vigdorovich, K. Raymond, R. K. Strong
Structural Studies Of Human Siderocalin
To Be Published
[
close entry info
]
Hetero Components
(5, 16)
Info
All Hetero Components
1a: FE (III) ION (FEa)
1b: FE (III) ION (FEb)
1c: FE (III) ION (FEc)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
3c: SODIUM ION (NAc)
3d: SODIUM ION (NAd)
4a: METHYL N~6~-ACETYL-N~2~-[(2,3-DIHY... (RKSa)
4b: METHYL N~6~-ACETYL-N~2~-[(2,3-DIHY... (RKSb)
4c: METHYL N~6~-ACETYL-N~2~-[(2,3-DIHY... (RKSc)
4d: METHYL N~6~-ACETYL-N~2~-[(2,3-DIHY... (RKSd)
4e: METHYL N~6~-ACETYL-N~2~-[(2,3-DIHY... (RKSe)
4f: METHYL N~6~-ACETYL-N~2~-[(2,3-DIHY... (RKSf)
5a: SULFATE ION (SO4a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FE
3
Ligand/Ion
FE (III) ION
2
GOL
2
Ligand/Ion
GLYCEROL
3
NA
4
Ligand/Ion
SODIUM ION
4
RKS
6
Ligand/Ion
METHYL N~6~-ACETYL-N~2~-[(2,3-DIHYDROXYPHENYL)CARBONYL]-N~6~-HYDROXY-D-LYSYL-N~6~-ACETYL-N~6~-HYDROXY-L-LYSINATE
5
SO4
1
Ligand/Ion
SULFATE ION
[
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Sites
(12, 12)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
RKS A:180 , RKS A:181
BINDING SITE FOR RESIDUE FE A 179
02
AC2
SOFTWARE
LEU A:36 , ALA A:40 , ILE A:41 , GLN A:49 , ARG A:72 , TYR A:106 , PHE A:123 , LYS A:125 , TYR A:132 , LYS A:134 , FE A:179 , RKS A:181 , HOH A:189 , HOH A:202
BINDING SITE FOR RESIDUE RKS A 180
03
AC3
SOFTWARE
TRP A:79 , TYR A:106 , LYS A:125 , LYS A:134 , FE A:179 , RKS A:180
BINDING SITE FOR RESIDUE RKS A 181
04
AC4
SOFTWARE
PRO A:162 , HIS A:165 , LYS C:75
BINDING SITE FOR RESIDUE GOL A 182
05
AC5
SOFTWARE
ASN A:114 , HIS A:118 , ASN B:116 , ASN C:116
BINDING SITE FOR RESIDUE GOL A 183
06
AC6
SOFTWARE
RKS B:180 , RKS B:181
BINDING SITE FOR RESIDUE FE B 179
07
AC7
SOFTWARE
ALA B:40 , ILE B:41 , TYR B:52 , TYR B:106 , PHE B:123 , LYS B:134 , FE B:179 , RKS B:181
BINDING SITE FOR RESIDUE RKS B 180
08
AC8
SOFTWARE
TRP B:79 , TYR B:106 , LYS B:125 , LYS B:134 , FE B:179 , RKS B:180
BINDING SITE FOR RESIDUE RKS B 181
09
AC9
SOFTWARE
RKS C:180 , RKS C:181
BINDING SITE FOR RESIDUE FE C 179
10
BC1
SOFTWARE
ALA C:40 , ILE C:41 , TYR C:52 , LEU C:70 , TYR C:106 , LYS C:125 , TYR C:132 , LYS C:134 , FE C:179 , RKS C:181 , HOH C:219
BINDING SITE FOR RESIDUE RKS C 180
11
BC2
SOFTWARE
TRP C:79 , LEU C:94 , TYR C:106 , LYS C:125 , LYS C:134 , FE C:179 , RKS C:180 , SO4 C:184 , HOH C:188 , HOH C:214
BINDING SITE FOR RESIDUE RKS C 181
12
BC3
SOFTWARE
VAL C:33 , TYR C:52 , THR C:54 , SER C:68 , ARG C:81 , PHE C:123 , LYS C:134 , THR C:136 , TYR C:138 , RKS C:181
BINDING SITE FOR RESIDUE SO4 C 184
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 3)
Info
All PROSITE Patterns/Profiles
1: LIPOCALIN (A:21-34,B:21-34,C:21-34)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
LIPOCALIN
PS00213
Lipocalin signature.
NGAL_HUMAN
41-54
3
A:21-34
B:21-34
C:21-34
[
close PROSITE info
]
Exons
(6, 18)
Info
All Exons
Exon 1.2d (A:4-26 | B:5-26 | C:4-26)
Exon 1.3 (A:27-72 | B:27-72 | C:27-72)
Exon 1.6b (A:72-99 | B:72-99 | C:72-99)
Exon 1.7 (A:99-139 | B:99-139 | C:99-139)
Exon 1.8 (A:139-173 | B:139-173 (gaps) | C:1...)
Exon 1.9b (A:173-177 | B:173-177 | C:173-177)
View:
Select:
Label:
All Exon Boundaries
1: Boundary 1.1/1.2d
2: Boundary 1.2d/1.3
3: Boundary 1.3/1.6b
4: Boundary 1.6b/1.7
5: Boundary 1.7/1.8
6: Boundary 1.8/1.9b
7: Boundary 1.9b/-
View:
Label:
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
ENST00000373017
1
ENSE00001459333
chr9:
130911350-130911543
194
NGAL_HUMAN
-
0
0
-
-
1.2d
ENST00000373017
2d
ENSE00001459332
chr9:
130911762-130911942
181
NGAL_HUMAN
1-46
46
3
A:4-26
B:5-26
C:4-26
23
22
23
1.3
ENST00000373017
3
ENSE00000984625
chr9:
130912517-130912653
137
NGAL_HUMAN
47-92
46
3
A:27-72
B:27-72
C:27-72
46
46
46
1.6b
ENST00000373017
6b
ENSE00000984626
chr9:
130913917-130913996
80
NGAL_HUMAN
92-119
28
3
A:72-99
B:72-99
C:72-99
28
28
28
1.7
ENST00000373017
7
ENSE00000984627
chr9:
130914185-130914304
120
NGAL_HUMAN
119-159
41
3
A:99-139
B:99-139
C:99-139
41
41
41
1.8
ENST00000373017
8
ENSE00001419823
chr9:
130914462-130914563
102
NGAL_HUMAN
159-193
35
3
A:139-173
B:139-173 (gaps)
C:139-173
35
35
35
1.9b
ENST00000373017
9b
ENSE00001459311
chr9:
130915379-130915412
34
NGAL_HUMAN
193-198
6
3
A:173-177
B:173-177
C:173-177
5
5
5
[
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]
SCOP Domains
(1, 3)
Info
All SCOP Domains
1a: SCOP_d3hwea_ (A:)
1b: SCOP_d3hweb_ (B:)
1c: SCOP_d3hwec_ (C:)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
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
d3hwea_
A:
1b
d3hweb_
B:
1c
d3hwec_
C:
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
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Label:
Sorry, no Info available
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Chain C
Asymmetric Unit 1
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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