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3HWG
Biol. Unit 3
Info
Asym.Unit (99 KB)
Biol.Unit 1 (34 KB)
Biol.Unit 2 (29 KB)
Biol.Unit 3 (35 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF SIDEROCALIN (NGAL, LIPOCALIN 2) COMPLEXED WITH FE-TRENCAM-HOPO2
Authors
:
M. C. Clifton
Date
:
17 Jun 09 (Deposition) - 02 Jun 10 (Release) - 02 Jun 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.19
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
[
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Hetero Components
(3, 10)
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)
3j: GLYCEROL (GOLj)
3k: GLYCEROL (GOLk)
3l: GLYCEROL (GOLl)
4a: SODIUM ION (NAa)
4b: SODIUM ION (NAb)
4c: SODIUM ION (NAc)
4d: SODIUM ION (NAd)
4e: SODIUM ION (NAe)
4f: SODIUM ION (NAf)
4g: SODIUM ION (NAg)
4h: SODIUM ION (NAh)
5a: N,N'-{[(2-{[(2,3-DIHYDROXYPHENYL)C... (QEDa)
5b: N,N'-{[(2-{[(2,3-DIHYDROXYPHENYL)C... (QEDb)
5c: N,N'-{[(2-{[(2,3-DIHYDROXYPHENYL)C... (QEDc)
6a: SULFATE ION (SO4a)
6b: SULFATE ION (SO4b)
6c: SULFATE ION (SO4c)
6d: SULFATE ION (SO4d)
6e: SULFATE ION (SO4e)
6f: SULFATE ION (SO4f)
6g: SULFATE ION (SO4g)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
FE
-1
Ligand/Ion
FE (III) ION
3
GOL
6
Ligand/Ion
GLYCEROL
4
NA
-1
Ligand/Ion
SODIUM ION
5
QED
1
Ligand/Ion
N,N'-{[(2-{[(2,3-DIHYDROXYPHENYL)CARBONYL]AMINO}ETHYL)IMINO]DIETHANE-2,1-DIYL}BIS(1-HYDROXY-6-OXO-1,6-DIHYDROPYRIDINE-2-CARBOXAMIDE)
6
SO4
3
Ligand/Ion
SULFATE ION
[
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Sites
(17, 17)
Info
All Sites
01: AC3 (SOFTWARE)
02: AC7 (SOFTWARE)
03: BC1 (SOFTWARE)
04: BC8 (SOFTWARE)
05: BC9 (SOFTWARE)
06: CC1 (SOFTWARE)
07: CC2 (SOFTWARE)
08: CC3 (SOFTWARE)
09: CC4 (SOFTWARE)
10: CC5 (SOFTWARE)
11: CC6 (SOFTWARE)
12: CC7 (SOFTWARE)
13: CC8 (SOFTWARE)
14: CC9 (SOFTWARE)
15: DC1 (SOFTWARE)
16: DC2 (SOFTWARE)
17: DC3 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC3
SOFTWARE
ASN A:164 , HIS A:165 , LYS C:75
BINDING SITE FOR RESIDUE GOL A 181
02
AC7
SOFTWARE
LYS A:30 , TYR A:32 , ASP A:177 , GLN C:20 , ASN C:21 , GLN C:88
BINDING SITE FOR RESIDUE GOL A 185
03
BC1
SOFTWARE
TYR A:78 , CYS A:175 , GLY A:178 , VAL C:126 , ASN C:129 , GLU C:131
BINDING SITE FOR RESIDUE SO4 A 190
04
BC8
SOFTWARE
QED C:180
BINDING SITE FOR RESIDUE FE C 179
05
BC9
SOFTWARE
ALA C:40 , SER C:68 , LEU C:70 , TRP C:79 , ARG C:81 , TYR C:100 , LEU C:103 , TYR C:106 , LYS C:125 , LYS C:134 , FE C:179 , SO4 C:192 , SO4 C:193 , HOH C:195 , HOH C:198 , HOH C:301
BINDING SITE FOR RESIDUE QED C 180
06
CC1
SOFTWARE
ARG C:43 , LYS C:157 , GLU C:163
BINDING SITE FOR RESIDUE CL C 181
07
CC2
SOFTWARE
GLY A:178 , SER C:87 , GLN C:88 , PRO C:89 , SER C:105 , LEU C:107 , LYS C:124
BINDING SITE FOR RESIDUE GOL C 182
08
CC3
SOFTWARE
THR C:93 , LEU C:94 , ILE C:97 , SER C:105 , TYR C:106 , HOH C:242
BINDING SITE FOR RESIDUE GOL C 183
09
CC4
SOFTWARE
LEU C:42 , ARG C:43 , GLU C:44 , PRO C:48 , GLN C:49 , VAL C:167
BINDING SITE FOR RESIDUE GOL C 184
10
CC5
SOFTWARE
LYS C:59 , GLU C:60 , HOH C:254
BINDING SITE FOR RESIDUE GOL C 185
11
CC6
SOFTWARE
ASN C:114 , HIS C:118
BINDING SITE FOR RESIDUE GOL C 186
12
CC7
SOFTWARE
ASN C:25 , GLN C:28
BINDING SITE FOR RESIDUE GOL C 187
13
CC8
SOFTWARE
LEU C:18
BINDING SITE FOR RESIDUE NA C 188
14
CC9
SOFTWARE
GLU C:91
BINDING SITE FOR RESIDUE NA C 191
15
DC1
SOFTWARE
TYR C:52 , THR C:54 , SER C:68 , ARG C:81 , PHE C:123 , LYS C:134 , THR C:136 , TYR C:138 , QED C:180
BINDING SITE FOR RESIDUE SO4 C 192
16
DC2
SOFTWARE
LEU C:36 , ILE C:41 , TYR C:52 , LYS C:134 , QED C:180
BINDING SITE FOR RESIDUE SO4 C 193
17
DC3
SOFTWARE
LYS A:75 , ASN C:164 , HIS C:165 , HOH C:256
BINDING SITE FOR RESIDUE SO4 C 194
[
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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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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: LIPOCALIN (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
1
-
-
C:21-34
[
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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_d3hwga_ (A:)
1b: SCOP_d3hwgb_ (B:)
1c: SCOP_d3hwgc_ (C:)
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)
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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
d3hwga_
A:
1b
d3hwgb_
B:
1c
d3hwgc_
C:
[
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Sorry, no Info available
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Atom Selection
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Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain C
Asymmetric Unit 1
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
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Asym.Unit (99 KB)
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Biol.Unit 1 (34 KB)
Header - Biol.Unit 1
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Header - Biol.Unit 2
Biol.Unit 3 (35 KB)
Header - Biol.Unit 3
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