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1TA8
Asym. Unit
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Asym.Unit (63 KB)
Biol.Unit 1 (59 KB)
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(1)
Title
:
STRUCTURAL REARRANGEMENT ACCOMPANYING NAD+ SYNTHESIS WITHIN A BACTERIAL DNA LIGASE CRYSTAL
Authors
:
K. S. Gajiwala, C. Pinko
Date
:
19 May 04 (Deposition) - 23 Nov 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A
Biol. Unit 1: A (1x)
Keywords
:
Nucleotidyl Transferase Fold, Ligase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
K. S. Gajiwala, C. Pinko
Structural Rearrangement Accompanying Nad+ Synthesis Within A Bacterial Dna Ligase Crystal.
Structure V. 12 1449 2004
(for further references see the
PDB file header
)
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Hetero Components
(3, 4)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
2a: BETA-NICOTINAMIDE RIBOSE MONOPHOSP... (NMNa)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
View:
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Label:
No.
Name
Count
Type
Full Name
1
GOL
1
Ligand/Ion
GLYCEROL
2
NMN
1
Ligand/Ion
BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE
3
SO4
2
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 A:123 , LEU A:124 , ALA A:125 , ARG A:141 , ARG A:202 , HOH A:658 , HOH A:736 , HOH A:863 , HOH A:875
BINDING SITE FOR RESIDUE SO4 A 402
2
AC2
SOFTWARE
PRO A:81 , ARG A:129 , ARG A:137 , HOH A:635 , HOH A:664 , HOH A:883
BINDING SITE FOR RESIDUE SO4 A 403
3
AC3
SOFTWARE
TYR A:25 , TYR A:29 , TYR A:30 , VAL A:37 , ASP A:39 , TYR A:42 , ASP A:43 , ARG A:158 , HOH A:603 , HOH A:648 , HOH A:701 , HOH A:824
BINDING SITE FOR RESIDUE NMN A 401
4
AC4
SOFTWARE
TYR A:227 , PHE A:303 , HOH A:667 , HOH A:759
BINDING SITE FOR RESIDUE GOL A 601
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: DNA_LIGASE_N1 (A:120-149)
;
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
DNA_LIGASE_N1
PS01055
NAD-dependent DNA ligase signature 1.
DNLJ_ENTFA
120-149
1
A:120-149
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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
(1, 1)
Info
All SCOP Domains
1a: SCOP_d1ta8a_ (A:)
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(
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)
(
)
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)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
ATP-grasp
(191)
Superfamily
:
DNA ligase/mRNA capping enzyme, catalytic domain
(33)
Family
:
Adenylation domain of NAD+-dependent DNA ligase
(16)
Protein domain
:
Adenylation domain of NAD+-dependent DNA ligase
(14)
Enterococcus faecalis [TaxId: 1351]
(9)
1a
d1ta8a_
A:
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CATH Domains
(3, 3)
Info
all CATH domains
1a: CATH_1ta8A03 (A:124-253)
2a: CATH_1ta8A02 (A:88-122,A:254-317)
3a: CATH_1ta8A01 (A:5-68)
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)
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)
Homologous Superfamilies
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
D-amino Acid Aminotransferase; Chain A, domain 1
(175)
Homologous Superfamily
:
DNA ligase/mRNA capping enzyme
(18)
Enterococcus faecalis v583. Organism_taxid: 226185. Strain: v583.
(2)
1a
1ta8A03
A:124-253
Topology
:
Dna Ligase; domain 1
(375)
Homologous Superfamily
:
[code=3.30.1490.70, no name defined]
(15)
Enterococcus faecalis v583. Organism_taxid: 226185. Strain: v583.
(2)
2a
1ta8A02
A:88-122,A:254-317
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
Helix hairpin bin
(10)
Enterococcus faecalis v583. Organism_taxid: 226185. Strain: v583.
(2)
3a
1ta8A01
A:5-68
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Pfam Domains
(1, 1)
Info
all PFAM domains
1a: PFAM_DNA_ligase_aden_1ta8A01 (A:9-317)
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Clans
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)
Organisms
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)
(
)
Clan
:
DNA_ligase
(17)
Family
:
DNA_ligase_aden
(7)
Enterococcus faecalis (Streptococcus faecalis)
(2)
1a
DNA_ligase_aden-1ta8A01
A:9-317
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Chain A
Asymmetric Unit 1
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Asym.Unit (63 KB)
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