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1VEQ
Asym. Unit
Info
Asym.Unit (286 KB)
Biol.Unit 1 (277 KB)
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(1)
Title
:
MYCOBACTERIUM SMEGMATIS DPS HEXAGONAL FORM
Authors
:
S. Roy, S. Gupta, S. Das, K. Sekar, D. Chatterji, M. Vijayan
Date
:
03 Apr 04 (Deposition) - 29 Jun 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.98
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
:
Dna-Binding Protein, Dna Binding Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Roy, S. Gupta, S. Das, K. Sekar, D. Chatterji, M. Vijayan
X-Ray Analysis Of Mycobacterium Smegmatis Dps And A Comparative Study Involving Other Dps And Dps-Like Molecules
J. Mol. Biol. V. 339 1103 2004
(for further references see the
PDB file header
)
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Hetero Components
(1, 12)
Info
All Hetero Components
1a: FE (III) ION (FEa)
1b: FE (III) ION (FEb)
1c: FE (III) ION (FEc)
1d: FE (III) ION (FEd)
1e: FE (III) ION (FEe)
1f: FE (III) ION (FEf)
1g: FE (III) ION (FEg)
1h: FE (III) ION (FEh)
1i: FE (III) ION (FEi)
1j: FE (III) ION (FEj)
1k: FE (III) ION (FEk)
1l: FE (III) ION (FEl)
View:
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Label:
No.
Name
Count
Type
Full Name
1
FE
12
Ligand/Ion
FE (III) 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
HIS A:39 , ASP J:66 , GLU J:70
BINDING SITE FOR RESIDUE FE J 201
02
AC2
SOFTWARE
HIS B:39 , ASP E:66 , GLU E:70
BINDING SITE FOR RESIDUE FE E 202
03
AC3
SOFTWARE
HIS C:39 , ASP C:55 , ASP I:66 , GLU I:70
BINDING SITE FOR RESIDUE FE I 203
04
AC4
SOFTWARE
HIS D:39 , ASP G:66 , GLU G:70
BINDING SITE FOR RESIDUE FE G 204
05
AC5
SOFTWARE
ASP B:66 , GLU B:70 , HIS E:39
BINDING SITE FOR RESIDUE FE B 205
06
AC6
SOFTWARE
HIS F:39 , ASP L:66 , GLU L:70
BINDING SITE FOR RESIDUE FE L 206
07
AC7
SOFTWARE
ASP D:66 , GLU D:70 , HIS G:39
BINDING SITE FOR RESIDUE FE D 207
08
AC8
SOFTWARE
HIS H:39 , ASP K:66 , GLU K:70
BINDING SITE FOR RESIDUE FE K 208
09
AC9
SOFTWARE
ASP C:66 , GLU C:70 , HIS I:39
BINDING SITE FOR RESIDUE FE C 209
10
BC1
SOFTWARE
ASP A:66 , GLU A:70 , HIS J:39
BINDING SITE FOR RESIDUE FE A 210
11
BC2
SOFTWARE
ASP H:66 , GLU H:70 , HIS K:39
BINDING SITE FOR RESIDUE FE H 211
12
BC3
SOFTWARE
ASP F:66 , GLU F:70 , HIS L:39
BINDING SITE FOR RESIDUE FE F 212
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 12)
Info
All PROSITE Patterns/Profiles
1: DPS_1 (A:39-55,B:39-55,C:39-55,D:39-55,E:...)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
DPS_1
PS00818
Dps protein family signature 1.
DPS_MYCS2
39-55
12
A:39-55
B:39-55
C:39-55
D:39-55
E:39-55
F:39-55
G:39-55
H:39-55
I:39-55
J:39-55
K:39-55
L:39-55
DPS_MYCSM
39-55
12
A:39-55
B:39-55
C:39-55
D:39-55
E:39-55
F:39-55
G:39-55
H:39-55
I:39-55
J:39-55
K:39-55
L:39-55
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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.
SCOP Domains
(1, 12)
Info
All SCOP Domains
1a: SCOP_d1veqa_ (A:)
1b: SCOP_d1veqb_ (B:)
1c: SCOP_d1veqc_ (C:)
1d: SCOP_d1veqd_ (D:)
1e: SCOP_d1veqe_ (E:)
1f: SCOP_d1veqf_ (F:)
1g: SCOP_d1veqg_ (G:)
1h: SCOP_d1veqh_ (H:)
1i: SCOP_d1veqi_ (I:)
1j: SCOP_d1veqj_ (J:)
1k: SCOP_d1veqk_ (K:)
1l: SCOP_d1veql_ (L:)
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)
(
)
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(
)
(
)
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)
Mycobacterium smegmatis [TaxId: 1772]
(5)
1a
d1veqa_
A:
1b
d1veqb_
B:
1c
d1veqc_
C:
1d
d1veqd_
D:
1e
d1veqe_
E:
1f
d1veqf_
F:
1g
d1veqg_
G:
1h
d1veqh_
H:
1i
d1veqi_
I:
1j
d1veqj_
J:
1k
d1veqk_
K:
1l
d1veql_
L:
[
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CATH Domains
(1, 12)
Info
all CATH domains
1a: CATH_1veqA00 (A:3-160)
1b: CATH_1veqB00 (B:3-160)
1c: CATH_1veqC00 (C:3-160)
1d: CATH_1veqD00 (D:3-160)
1e: CATH_1veqE00 (E:3-160)
1f: CATH_1veqF00 (F:3-160)
1g: CATH_1veqG00 (G:3-160)
1h: CATH_1veqH00 (H:3-160)
1i: CATH_1veqI00 (I:3-160)
1j: CATH_1veqJ00 (J:3-160)
1k: CATH_1veqK00 (K:3-160)
1l: CATH_1veqL00 (L:3-160)
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(
)
(
)
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)
Mycobacterium smegmatis. Organism_taxid: 1772.
(5)
1a
1veqA00
A:3-160
1b
1veqB00
B:3-160
1c
1veqC00
C:3-160
1d
1veqD00
D:3-160
1e
1veqE00
E:3-160
1f
1veqF00
F:3-160
1g
1veqG00
G:3-160
1h
1veqH00
H:3-160
1i
1veqI00
I:3-160
1j
1veqJ00
J:3-160
1k
1veqK00
K:3-160
1l
1veqL00
L:3-160
[
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Pfam Domains
(1, 12)
Info
all PFAM domains
1a: PFAM_Ferritin_1veqL01 (L:18-160)
1b: PFAM_Ferritin_1veqL02 (L:18-160)
1c: PFAM_Ferritin_1veqL03 (L:18-160)
1d: PFAM_Ferritin_1veqL04 (L:18-160)
1e: PFAM_Ferritin_1veqL05 (L:18-160)
1f: PFAM_Ferritin_1veqL06 (L:18-160)
1g: PFAM_Ferritin_1veqL07 (L:18-160)
1h: PFAM_Ferritin_1veqL08 (L:18-160)
1i: PFAM_Ferritin_1veqL09 (L:18-160)
1j: PFAM_Ferritin_1veqL10 (L:18-160)
1k: PFAM_Ferritin_1veqL11 (L:18-160)
1l: PFAM_Ferritin_1veqL12 (L:18-160)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Ferritin
(185)
Family
:
Ferritin
(83)
Mycobacterium smegmatis
(6)
1a
Ferritin-1veqL01
L:18-160
1b
Ferritin-1veqL02
L:18-160
1c
Ferritin-1veqL03
L:18-160
1d
Ferritin-1veqL04
L:18-160
1e
Ferritin-1veqL05
L:18-160
1f
Ferritin-1veqL06
L:18-160
1g
Ferritin-1veqL07
L:18-160
1h
Ferritin-1veqL08
L:18-160
1i
Ferritin-1veqL09
L:18-160
1j
Ferritin-1veqL10
L:18-160
1k
Ferritin-1veqL11
L:18-160
1l
Ferritin-1veqL12
L:18-160
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Chain L
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