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1L8H
Asym. Unit
Info
Asym.Unit (306 KB)
Biol.Unit 1 (299 KB)
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(1)
Title
:
DNA PROTECTION AND BINDING BY E. COLI DPS PROTEIN
Authors
:
J. Luo, D. Liu, M. A. White, R. O. Fox
Date
:
20 Mar 02 (Deposition) - 24 Jun 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.20
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L (1x)
Keywords
:
Dodecamer, Metal Bound Complex, Dna Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. Luo, D. Liu, M. A. White, R. O. Fox
Dna Protection And Binding By E. Coli Dps Protein
To Be Published
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 24)
Info
All Hetero Components
1a: POTASSIUM ION (Ka)
1b: POTASSIUM ION (Kb)
1c: POTASSIUM ION (Kc)
1d: POTASSIUM ION (Kd)
1e: POTASSIUM ION (Ke)
1f: POTASSIUM ION (Kf)
1g: POTASSIUM ION (Kg)
1h: POTASSIUM ION (Kh)
1i: POTASSIUM ION (Ki)
1j: POTASSIUM ION (Kj)
1k: POTASSIUM ION (Kk)
1l: POTASSIUM ION (Kl)
2a: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSa)
2b: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSb)
2c: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSc)
2d: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSd)
2e: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSe)
2f: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSf)
2g: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSg)
2h: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSh)
2i: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSi)
2j: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSj)
2k: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSk)
2l: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
K
12
Ligand/Ion
POTASSIUM ION
2
TRS
12
Ligand/Ion
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
[
close Hetero Component info
]
Sites
(18, 18)
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)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU E:82
BINDING SITE FOR RESIDUE K E 251
02
AC2
SOFTWARE
HOH L:589
BINDING SITE FOR RESIDUE K L 255
03
AC3
SOFTWARE
HOH L:603
BINDING SITE FOR RESIDUE K K 257
04
AC4
SOFTWARE
ARG G:153
BINDING SITE FOR RESIDUE K G 259
05
AC5
SOFTWARE
ASP G:146
BINDING SITE FOR RESIDUE K G 260
06
AC6
SOFTWARE
ASP C:146 , ASP F:146
BINDING SITE FOR RESIDUE K C 262
07
AC7
SOFTWARE
ASP A:146 , ASP E:146 , ASP I:146
BINDING SITE FOR RESIDUE TRS A 301
08
AC8
SOFTWARE
GLU C:64 , GLU G:64 , GLU K:64
BINDING SITE FOR RESIDUE TRS K 302
09
AC9
SOFTWARE
GLU C:167 , GLU G:167 , GLU K:167
BINDING SITE FOR RESIDUE TRS G 303
10
BC1
SOFTWARE
ASP B:146 , ASP H:146 , ASP K:146
BINDING SITE FOR RESIDUE TRS B 304
11
BC2
SOFTWARE
GLU D:64 , GLU F:64 , GLU I:64
BINDING SITE FOR RESIDUE TRS D 305
12
BC3
SOFTWARE
GLU D:167 , GLU F:167 , GLU I:167
BINDING SITE FOR RESIDUE TRS D 306
13
BC4
SOFTWARE
ASP C:146 , ASP F:146 , ASP L:146
BINDING SITE FOR RESIDUE TRS C 307
14
BC5
SOFTWARE
GLU A:64 , GLU H:64 , GLU J:64
BINDING SITE FOR RESIDUE TRS J 308
15
BC6
SOFTWARE
GLU A:167 , GLU H:167 , GLU J:167
BINDING SITE FOR RESIDUE TRS A 309
16
BC7
SOFTWARE
ASP D:146 , ASP G:146 , ASP J:146
BINDING SITE FOR RESIDUE TRS D 310
17
BC8
SOFTWARE
GLU B:64 , GLU E:64 , GLU L:64
BINDING SITE FOR RESIDUE TRS E 311
18
BC9
SOFTWARE
GLU B:167 , GLU E:167 , GLU L:167
BINDING SITE FOR RESIDUE TRS B 312
[
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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
(2, 24)
Info
All PROSITE Patterns/Profiles
1: DPS_1 (A:51-67,B:51-67,C:51-67,D:51-67,E:...)
2: DPS_2 (A:77-91,B:77-91,C:77-91,D:77-91,E:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
DPS_1
PS00818
Dps protein family signature 1.
DPS_ECOLI
51-67
12
A:51-67
B:51-67
C:51-67
D:51-67
E:51-67
F:51-67
G:51-67
H:51-67
I:51-67
J:51-67
K:51-67
L:51-67
2
DPS_2
PS00819
Dps protein family signature 2.
DPS_ECOLI
77-91
12
A:77-91
B:77-91
C:77-91
D:77-91
E:77-91
F:77-91
G:77-91
H:77-91
I:77-91
J:77-91
K:77-91
L:77-91
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 12)
Info
All SCOP Domains
1a: SCOP_d1l8ha_ (A:)
1b: SCOP_d1l8hb_ (B:)
1c: SCOP_d1l8hc_ (C:)
1d: SCOP_d1l8hd_ (D:)
1e: SCOP_d1l8he_ (E:)
1f: SCOP_d1l8hf_ (F:)
1g: SCOP_d1l8hg_ (G:)
1h: SCOP_d1l8hh_ (H:)
1i: SCOP_d1l8hi_ (I:)
1j: SCOP_d1l8hj_ (J:)
1k: SCOP_d1l8hk_ (K:)
1l: SCOP_d1l8hl_ (L:)
View:
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)
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)
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)
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(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Ferritin-like
(533)
Superfamily
:
Ferritin-like
(489)
Family
:
Ferritin
(232)
Protein domain
:
Dodecameric ferritin homolog
(44)
Escherichia coli, Dps [TaxId: 562]
(7)
1a
d1l8ha_
A:
1b
d1l8hb_
B:
1c
d1l8hc_
C:
1d
d1l8hd_
D:
1e
d1l8he_
E:
1f
d1l8hf_
F:
1g
d1l8hg_
G:
1h
d1l8hh_
H:
1i
d1l8hi_
I:
1j
d1l8hj_
J:
1k
d1l8hk_
K:
1l
d1l8hl_
L:
[
close SCOP info
]
CATH Domains
(1, 12)
Info
all CATH domains
1a: CATH_1l8hC00 (C:10-167)
1b: CATH_1l8hA00 (A:12-167)
1c: CATH_1l8hE00 (E:12-167)
1d: CATH_1l8hG00 (G:12-167)
1e: CATH_1l8hH00 (H:12-167)
1f: CATH_1l8hI00 (I:12-167)
1g: CATH_1l8hJ00 (J:12-167)
1h: CATH_1l8hD00 (D:13-167)
1i: CATH_1l8hK00 (K:13-167)
1j: CATH_1l8hB00 (B:14-167)
1k: CATH_1l8hF00 (F:14-167)
1l: CATH_1l8hL00 (L:14-167)
View:
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Classes
(
)
(
)
Architectures
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)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Ferritin;
(180)
Homologous Superfamily
:
[code=1.20.1260.10, no name defined]
(180)
Escherichia coli. Organism_taxid: 562.
(4)
1a
1l8hC00
C:10-167
1b
1l8hA00
A:12-167
1c
1l8hE00
E:12-167
1d
1l8hG00
G:12-167
1e
1l8hH00
H:12-167
1f
1l8hI00
I:12-167
1g
1l8hJ00
J:12-167
1h
1l8hD00
D:13-167
1i
1l8hK00
K:13-167
1j
1l8hB00
B:14-167
1k
1l8hF00
F:14-167
1l
1l8hL00
L:14-167
[
close CATH info
]
Pfam Domains
(1, 12)
Info
all PFAM domains
1a: PFAM_Ferritin_1l8hL01 (L:30-167)
1b: PFAM_Ferritin_1l8hL02 (L:30-167)
1c: PFAM_Ferritin_1l8hL03 (L:30-167)
1d: PFAM_Ferritin_1l8hL04 (L:30-167)
1e: PFAM_Ferritin_1l8hL05 (L:30-167)
1f: PFAM_Ferritin_1l8hL06 (L:30-167)
1g: PFAM_Ferritin_1l8hL07 (L:30-167)
1h: PFAM_Ferritin_1l8hL08 (L:30-167)
1i: PFAM_Ferritin_1l8hL09 (L:30-167)
1j: PFAM_Ferritin_1l8hL10 (L:30-167)
1k: PFAM_Ferritin_1l8hL11 (L:30-167)
1l: PFAM_Ferritin_1l8hL12 (L:30-167)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Ferritin
(185)
Family
:
Ferritin
(83)
Escherichia coli (strain K12)
(4)
1a
Ferritin-1l8hL01
L:30-167
1b
Ferritin-1l8hL02
L:30-167
1c
Ferritin-1l8hL03
L:30-167
1d
Ferritin-1l8hL04
L:30-167
1e
Ferritin-1l8hL05
L:30-167
1f
Ferritin-1l8hL06
L:30-167
1g
Ferritin-1l8hL07
L:30-167
1h
Ferritin-1l8hL08
L:30-167
1i
Ferritin-1l8hL09
L:30-167
1j
Ferritin-1l8hL10
L:30-167
1k
Ferritin-1l8hL11
L:30-167
1l
Ferritin-1l8hL12
L:30-167
[
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]
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Chain L
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (306 KB)
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