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1NKT
Asym. Unit
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Asym.Unit (285 KB)
Biol.Unit 1 (278 KB)
Biol.Unit 2 (550 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE SECA PROTEIN TRANSLOCATION ATPASE FROM MYCOBACTERIUM TUBERCULOSIS COMPLEX WITH ADPBS
Authors
:
V. Sharma, A. Arockiasamy, D. R. Ronning, C. G. Savva, A. Holzenburg, M. Braunstein, W. R. Jacobs Jr. , J. C. Sacchettini, Tb Structural Genomics Consortium (Tbsgc)
Date
:
03 Jan 03 (Deposition) - 04 Mar 03 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Biol. Unit 2: A,B (2x)
Keywords
:
Preprotein Translocation, Atpase, Transmembrane Transport, Helicase-Like Motor Domain, Structural Genomics, Psi, Protein Structure Initiative, Tb Structural Genomics Consortium, Tbsgc, Protein Transport
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
V. Sharma, A. Arockiasamy, D. R. Ronning, C. G. Savva, A. Holzenburg, M. Braunstein, W. R. Jacobs Jr. , J. C. Sacchettini
Crystal Structure Of M. Tuberculosis Seca, A Preprotein Translocating Atpase
Proc. Natl. Acad. Sci. Usa V. 100 2243 2003
(for further references see the
PDB file header
)
[
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Hetero Components
(2, 4)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
ADP
2
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
MG
2
Ligand/Ion
MAGNESIUM ION
[
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Sites
(4, 4)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
LYS A:107 , ADP A:900 , HOH A:1294
BINDING SITE FOR RESIDUE MG A 951
2
AC2
SOFTWARE
ADP B:901 , HOH B:1284
BINDING SITE FOR RESIDUE MG B 952
3
AC3
SOFTWARE
GLN A:80 , ARG A:81 , PHE A:83 , GLN A:86 , GLY A:104 , GLU A:105 , GLY A:106 , LYS A:107 , THR A:108 , LEU A:109 , TRP A:141 , ASP A:493 , ASN A:499 , ASP A:501 , ARG A:573 , MG A:951 , HOH A:1215 , HOH A:1294 , HOH A:1370
BINDING SITE FOR RESIDUE ADP A 900
4
AC4
SOFTWARE
GLN B:80 , ARG B:81 , PHE B:83 , GLN B:86 , GLY B:104 , GLU B:105 , GLY B:106 , LYS B:107 , THR B:108 , TRP B:141 , ASP B:493 , ASN B:499 , ASP B:501 , ARG B:573 , MG B:952 , HOH B:1217 , HOH B:1384
BINDING SITE FOR RESIDUE ADP B 901
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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
(2, 4)
Info
All PROSITE Patterns/Profiles
1: SECA_MOTOR_DEAD (A:2-615,B:2-615,A:2-615,B:2-615)
2: SECA (A:481-496,B:481-496,A:481-496,B:48...)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SECA_MOTOR_DEAD
PS51196
SecA family profile.
SECA1_MYCTO
1-615
2
A:2-615
B:2-615
SECA1_MYCTU
1-615
2
A:2-615
B:2-615
2
SECA
PS01312
SecA family signature.
SECA1_MYCTO
481-496
2
A:481-496
B:481-496
SECA1_MYCTU
481-496
2
A:481-496
B:481-496
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Exons
(0, 0)
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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
(3, 8)
Info
All SCOP Domains
1a: SCOP_d1nkta2 (A:616-835)
1b: SCOP_d1nktb2 (B:616-835)
2a: SCOP_d1nkta1 (A:226-349)
2b: SCOP_d1nktb1 (B:226-349)
3a: SCOP_d1nkta3 (A:-15-225,A:350-396)
3b: SCOP_d1nkta4 (A:397-615)
3c: SCOP_d1nktb3 (B:-15-225,B:350-396)
3d: SCOP_d1nktb4 (B:397-615)
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Classes
(
)
(
)
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)
(
)
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(
)
(
)
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(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Helical scaffold and wing domains of SecA
(6)
Superfamily
:
Helical scaffold and wing domains of SecA
(6)
Family
:
Helical scaffold and wing domains of SecA
(6)
Protein domain
:
Helical scaffold and wing domains of SecA
(6)
Mycobacterium tuberculosis [TaxId: 1773]
(2)
1a
d1nkta2
A:616-835
1b
d1nktb2
B:616-835
Fold
:
Pre-protein crosslinking domain of SecA
(6)
Superfamily
:
Pre-protein crosslinking domain of SecA
(6)
Family
:
Pre-protein crosslinking domain of SecA
(6)
Protein domain
:
Pre-protein crosslinking domain of SecA
(6)
Mycobacterium tuberculosis [TaxId: 1773]
(2)
2a
d1nkta1
A:226-349
2b
d1nktb1
B:226-349
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
Tandem AAA-ATPase domain
(59)
Protein domain
:
Translocation ATPase SecA, nucleotide-binding domains
(6)
Mycobacterium tuberculosis [TaxId: 1773]
(2)
3a
d1nkta3
A:-15-225,A:350-396
3b
d1nkta4
A:397-615
3c
d1nktb3
B:-15-225,B:350-396
3d
d1nktb4
B:397-615
[
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]
CATH Domains
(3, 4)
Info
all CATH domains
1a: CATH_1nktA03 (A:398-615)
1b: CATH_1nktA01 (A:-15-227,A:350-397)
2a: CATH_1nktA02 (A:228-349)
3a: CATH_1nktA04 (A:644-835)
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)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Mycobacterium tuberculosis. Organism_taxid: 1773.
(17)
1a
1nktA03
A:398-615
1b
1nktA01
A:-15-227,A:350-397
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Pre-protein croslinking domain of SecA
(2)
Homologous Superfamily
:
Pre-protein croslinking domain of SecA
(2)
Mycobacterium tuberculosis. Organism_taxid: 1773.
(1)
2a
1nktA02
A:228-349
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Helical scaffold and wing domains of SecA
(1)
Homologous Superfamily
:
Helical scaffold and wing domains of SecA
(1)
Mycobacterium tuberculosis. Organism_taxid: 1773.
(1)
3a
1nktA04
A:644-835
[
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Pfam Domains
(3, 6)
Info
all PFAM domains
1a: PFAM_SecA_DEAD_1nktB01 (B:2-383)
1b: PFAM_SecA_DEAD_1nktB02 (B:2-383)
2a: PFAM_SecA_PP_bind_1nktB03 (B:227-339)
2b: PFAM_SecA_PP_bind_1nktB04 (B:227-339)
3a: PFAM_SecA_SW_1nktB05 (B:613-835)
3b: PFAM_SecA_SW_1nktB06 (B:613-835)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
P-loop_NTPase
(1112)
Family
:
SecA_DEAD
(9)
Mycobacterium tuberculosis
(2)
1a
SecA_DEAD-1nktB01
B:2-383
1b
SecA_DEAD-1nktB02
B:2-383
Clan
:
no clan defined [family: SecA_PP_bind]
(9)
Family
:
SecA_PP_bind
(9)
Mycobacterium tuberculosis
(2)
2a
SecA_PP_bind-1nktB03
B:227-339
2b
SecA_PP_bind-1nktB04
B:227-339
Clan
:
no clan defined [family: SecA_SW]
(9)
Family
:
SecA_SW
(9)
Mycobacterium tuberculosis
(2)
3a
SecA_SW-1nktB05
B:613-835
3b
SecA_SW-1nktB06
B:613-835
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