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- SASDEC6: Adenylation Domain of DNA ligase A with NAD+ (DNA ligase A) -

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ID or keywords:

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Basic information

Entry
Database: SASBDB / ID: SASDEC6
SampleAdenylation Domain of DNA ligase A with NAD+
  • DNA ligase A (protein), Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
Function / homology
Function and homology information


base-excision repair, DNA ligation / DNA ligase (NAD+) / DNA ligase (NAD+) activity / DNA ligation / peptidoglycan-based cell wall / DNA replication / magnesium ion binding / plasma membrane / cytosol
Similarity search - Function
Zinc-finger, NAD-dependent DNA ligase C4-type / NAD-dependent DNA ligase C4 zinc finger domain / NAD-dependent DNA ligase, active site / NAD-dependent DNA ligase, conserved site / NAD-dependent DNA ligase signature 1. / NAD-dependent DNA ligase signature 2. / NAD-dependent DNA ligase / NAD-dependent DNA ligase, OB-fold / NAD-dependent DNA ligase, adenylation / NAD-dependent DNA ligase, N-terminal ...Zinc-finger, NAD-dependent DNA ligase C4-type / NAD-dependent DNA ligase C4 zinc finger domain / NAD-dependent DNA ligase, active site / NAD-dependent DNA ligase, conserved site / NAD-dependent DNA ligase signature 1. / NAD-dependent DNA ligase signature 2. / NAD-dependent DNA ligase / NAD-dependent DNA ligase, OB-fold / NAD-dependent DNA ligase, adenylation / NAD-dependent DNA ligase, N-terminal / NAD-dependent DNA ligase adenylation domain / NAD-dependent DNA ligase OB-fold domain / Ligase N family / DisA/LigA, helix-hairpin-helix motif / Helix-hairpin-helix motif / RuvA domain 2-like / BRCA1 C Terminus (BRCT) domain / breast cancer carboxy-terminal domain / BRCT domain profile. / BRCT domain / BRCT domain superfamily / Nucleic acid-binding, OB-fold
Similarity search - Domain/homology
Biological speciesMycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (bacteria)
Contact author
  • Ravishankar Ramachandran (CSIR-Central Drug Research Institute)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Models

Model #2486
Type: dummy / Radius of dummy atoms: 2.20 A / Symmetry: P1 / Chi-square value: 0.328 / P-value: 0.001009
Model #2487
Type: dummy / Radius of dummy atoms: 1.90 A / Chi-square value: 0.29 / P-value: 0.000062

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Sample

SampleName: Adenylation Domain of DNA ligase A with NAD+ / Specimen concentration: 10.8 mg/ml
BufferName: 50 mM Tris-HCl, 200 mM NaCl, 2mM β-mercaptoethanol (BME)
pH: 8
Entity #1327Type: protein / Description: DNA ligase A / Formula weight: 37.519 / Num. of mol.: 1
Source: Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
References: UniProt: P9WNV1
Sequence: VSSPDADQTA PEVLRQWQAL AEEVREHQFR YYVRDAPIIS DAEFDELLRR LEALEEQHPE LRTPDSPTQL VGGAGFATDF EPVDHLERML SLDNAFTADE LAAWAGRIHA EVGDAAHYLC ELKIDGVALS LVYREGRLTR ASTRGDGRTG EDVTLNARTI ADVPERLTPG ...Sequence:
VSSPDADQTA PEVLRQWQAL AEEVREHQFR YYVRDAPIIS DAEFDELLRR LEALEEQHPE LRTPDSPTQL VGGAGFATDF EPVDHLERML SLDNAFTADE LAAWAGRIHA EVGDAAHYLC ELKIDGVALS LVYREGRLTR ASTRGDGRTG EDVTLNARTI ADVPERLTPG DDYPVPEVLE VRGEVFFRLD DFQALNASLV EEGKAPFANP RNSAAGSLRQ KDPAVTARRR LRMICHGLGH VEGFRPATLH QAYLALRAWG LPVSEHTTLA TDLAGVRERI DYWGEHRHEV DHEIDGVVVK VDEVALQRRL GSTSRAPRWA IAYKYPPEHH HHHH

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Experimental information

BeamInstrument name: CSIR-Central Drug Research Institute Anton Paar SAXSpace
City: Lucknow / 国: India / Type of source: X-ray in house / Wavelength: 0.154 Å / Dist. spec. to detc.: 0.3 mm
DetectorName: Mythen2 R 1K / Type: Hybrid Photon Counting (HPC)
Scan
Title: Adenylation Domain of DNA ligase A with NAD+ / Measurement date: Oct 6, 2018 / Storage temperature: 4 °C / Cell temperature: 10 °C / Exposure time: 1800 sec. / Number of frames: 3 / Unit: 1/nm /
MinMax
Q0.1036 5.9999
Distance distribution function P(R)
Sofotware P(R): GNOM 5.0 / Number of points: 546 /
MinMax
Q0.264152 3.76446
P(R) point1 546
R0 6.17
Result
Type of curve: single_conc /
ExperimentalPorod
MW38 kDa59 kDa
Volume-94.26 nm3

P(R)GuinierGuinier error
Forward scattering, I0595300 599573 22300
Radius of gyration, Rg2.345 nm2.37 nm0.13

MinMax
D-6.17
Guinier point26 70

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