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1NMD
Biol. Unit 1
Info
Asym.Unit (91 KB)
Biol.Unit 1 (86 KB)
Biol.Unit 2 (168 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF D. DISCOIDEUM ACTIN-GELSOLIN SEGMENT 1 COMPLEX CRYSTALLIZED IN PRESENCE OF LITHIUM ATP
Authors
:
S. M. Vorobiev, S. Welti, J. Condeelis, S. C. Almo
Date
:
09 Jan 03 (Deposition) - 04 Feb 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,G
Biol. Unit 1: A,G (1x)
Biol. Unit 2: A,G (2x)
Keywords
:
Actin, Gelsolin, Cytoskeleton Organization, Actin- Associated Protein, Structural Protein
(Keyword Search:
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)
Reference
:
S. M. Vorobiev, B. Strokopytov, D. G. Drubin, C. Frieden, S. Ono, J. Condeelis, P. A. Rubenstein, S. C. Almo
The Structure Of The Non-Vertebrate Actin: Implications For The Atp Hydrolytic Mechanism
Proc. Natl. Acad. Sci. Usa V. 100 5760 2003
(for further references see the
PDB file header
)
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Hetero Components
(3, 3)
Info
All Hetero Components
1a: ADENOSINE-5'-TRIPHOSPHATE (ATPa)
2a: CALCIUM ION (CAa)
3a: SULFUR DIOXIDE (SO2a)
4a: SULFATE ION (SO4a)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ATP
1
Ligand/Ion
ADENOSINE-5'-TRIPHOSPHATE
2
CA
-1
Ligand/Ion
CALCIUM ION
3
SO2
1
Ligand/Ion
SULFUR DIOXIDE
4
SO4
1
Ligand/Ion
SULFATE ION
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLY G:41 , ASP G:42 , GLU G:73 , VAL G:121 , HOH G:414 , HOH G:422
BINDING SITE FOR RESIDUE CA G 402
2
AC2
SOFTWARE
GLY A:308 , ILE A:309 , ALA A:310 , ASP A:311 , HOH A:546 , HOH A:642
BINDING SITE FOR RESIDUE SO4 A 404
3
AC3
SOFTWARE
GLY A:13 , SER A:14 , GLY A:15 , MET A:16 , LYS A:18 , GLY A:156 , ASP A:157 , GLY A:182 , ARG A:183 , ARG A:210 , LYS A:213 , GLU A:214 , GLY A:301 , GLY A:302 , THR A:303 , MET A:305 , LYS A:336 , HOH A:408 , HOH A:416 , HOH A:423 , HOH A:424 , HOH A:438 , HOH A:439 , HOH A:468 , HOH A:478 , HOH A:562
BINDING SITE FOR RESIDUE ATP A 401
4
AC4
SOFTWARE
ARG A:62 , THR A:202 , THR A:203 , ALA A:204 , HOH A:500 , HOH A:626
BINDING SITE FOR RESIDUE SO2 A 403
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SAPs(SNPs)/Variants
(1, 1)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_024690 (A78T, chain G, )
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_024690
A
129
T
GELS_HUMAN
Polymorphism
2230287
G
A
78
T
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: ACTINS_1 (A:53-63)
2: ACTINS_ACT_LIKE (A:104-116)
3: ACTINS_2 (A:356-364)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
ACTINS_1
PS00406
Actins signature 1.
ACT1_DICDI
54-64
1
A:53-63
2
ACTINS_ACT_LIKE
PS01132
Actins and actin-related proteins signature.
ACT1_DICDI
105-117
1
A:104-116
3
ACTINS_2
PS00432
Actins signature 2.
ACT1_DICDI
357-365
1
A:356-364
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Exons
(0, 0)
Info
All Exons
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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
(2, 3)
Info
All SCOP Domains
1a: SCOP_d1nmdg_ (G:)
2a: SCOP_d1nmda1 (A:4-146)
2b: SCOP_d1nmda2 (A:147-375)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Gelsolin-like
(96)
Superfamily
:
Actin depolymerizing proteins
(88)
Family
:
Gelsolin-like
(43)
Protein domain
:
Gelsolin
(33)
Human (Homo sapiens) [TaxId: 9606]
(31)
1a
d1nmdg_
G:
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Ribonuclease H-like motif
(1424)
Superfamily
:
Actin-like ATPase domain
(426)
Family
:
Actin/HSP70
(199)
Protein domain
:
Actin
(69)
Slime mold (Dictyostelium discoideum) [TaxId: 44689]
(6)
2a
d1nmda1
A:4-146
2b
d1nmda2
A:147-375
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CATH Domains
(3, 4)
Info
all CATH domains
1a: CATH_1nmdA01 (A:4-137,A:339-373)
1b: CATH_1nmdA02 (A:138-179,A:272-338)
2a: CATH_1nmdG00 (G:3-125)
3a: CATH_1nmdA03 (A:180-271)
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)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Nucleotidyltransferase; domain 5
(788)
Homologous Superfamily
:
[code=3.30.420.40, no name defined]
(217)
Dictyostelium discoideum. Organism_taxid: 44689.
(3)
1a
1nmdA01
A:4-137,A:339-373
1b
1nmdA02
A:138-179,A:272-338
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Severin
(74)
Homologous Superfamily
:
Severin
(74)
Dictyostelium discoideum. Organism_taxid: 44689.
(3)
2a
1nmdG00
G:3-125
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Actin; Chain A, domain 4
(156)
Homologous Superfamily
:
Actin; Chain A, domain 4
(155)
Dictyostelium discoideum. Organism_taxid: 44689.
(3)
3a
1nmdA03
A:180-271
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Pfam Domains
(2, 2)
Info
all PFAM domains
1a: PFAM_Gelsolin_1nmdG01 (G:24-107)
2a: PFAM_Actin_1nmdA01 (A:4-375)
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)
Clan
:
ADF
(44)
Family
:
Gelsolin
(23)
Homo sapiens (Human)
(13)
1a
Gelsolin-1nmdG01
G:24-107
Clan
:
Actin_ATPase
(173)
Family
:
Actin
(70)
Dictyostelium discoideum (Slime mold)
(3)
2a
Actin-1nmdA01
A:4-375
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Asym.Unit (91 KB)
Header - Asym.Unit
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