BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 5297

Title: 1H, 13C, and 15N assignment of the N-terminal, DNA-binding domain of the replication initiation protein from a geminivirus   PubMed: 12130667

Authors: Campos-Olivas, Ramon; Louis, John; Clerot, J.; Gronenborn, Bruno; Gronenborn, Angela

Citation: Campos-Olivas, Ramon; Louis, John; Clerot, J.; Gronenborn, Bruno; Gronenborn, Angela. "The Structure of a Replication Initiator unites Diverse aspects of Nucleic Acid Metabolism"  Proc. Natl. Acad. Sci. U.S.A. 99, 10310-10315 (2002).

Assembly members:
N-terminal DNA-binding domain of Rep protein from a geminivirus, polymer, 118 residues, 13563.3 Da.

Natural source:   Common Name: Tomato yellow leaf curl virus - Sardinia   Taxonomy ID: 123735   Superkingdom: Viruses   Kingdom: not available   Genus/species: Begomovirus Tomato yellow leaf curl virus - Sardinia

Experimental source:   Production method: recombinant technology

Entity Sequences (FASTA):
N-terminal DNA-binding domain of Rep protein from a geminivirus: SGRFSIKAKNYFLTYPKCDL TKENALSQITNLQTPTNKLF IKICRELHENGEPHLHILIQ FEGKYNCTNQRFFDLVSPTR SAHFHPNIQGAKSSSDVKSY IDKDGDVLEWGTFQIDGR

Data sets:
Data typeCount
1H chemical shifts769
13C chemical shifts518
15N chemical shifts132
coupling constants84

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1NTD-Rep, rep4-1211

Entities:

Entity 1, NTD-Rep, rep4-121 118 residues - 13563.3 Da.

1   SERGLYARGPHESERILELYSALALYSASN
2   TYRPHELEUTHRTYRPROLYSCYSASPLEU
3   THRLYSGLUASNALALEUSERGLNILETHR
4   ASNLEUGLNTHRPROTHRASNLYSLEUPHE
5   ILELYSILECYSARGGLULEUHISGLUASN
6   GLYGLUPROHISLEUHISILELEUILEGLN
7   PHEGLUGLYLYSTYRASNCYSTHRASNGLN
8   ARGPHEPHEASPLEUVALSERPROTHRARG
9   SERALAHISPHEHISPROASNILEGLNGLY
10   ALALYSSERSERSERASPVALLYSSERTYR
11   ILEASPLYSASPGLYASPVALLEUGLUTRP
12   GLYTHRPHEGLNILEASPGLYARG

Samples:

sample1: N-terminal DNA-binding domain of Rep protein from a geminivirus, [10%-13C; U-99% 15N], 0.8 – 1.0 mM; sodium phosphate 20 mM; NaCl 100 mM; DTT 1 mM; D2O 8%; H2O 92%

sample2: N-terminal DNA-binding domain of Rep protein from a geminivirus, [U-13C; U-99% 15N], 0.8 – 1.0 mM; sodium phosphate 20 mM; NaCl 100 mM; DTT 1 mM; D2O 8%; H2O 92%

sample3: N-terminal DNA-binding domain of Rep protein from a geminivirus, [U-10% 13C; U-99% 15N], 0.8 – 1.0 mM; sodium phosphate 20 mM; NaCl 100 mM; DTT 1 mM; D2O 100%

sample4: N-terminal DNA-binding domain of Rep protein from a geminivirus, [U-13C; U-99% 15N], 0.8 – 1.0 mM; sodium phosphate 20 mM; NaCl 100 mM; DTT 1 mM; D2O 100%

cond_H2O: pH: 6.6; temperature: 298 K; ionic strength: 0.3 M

cond_D2O: pH*: 6.6; temperature: 298 K; ionic strength: 0.3 M

Experiments:

NameSampleSample stateSample conditions
2D 1H-1H NOESYnot availablenot availablenot available
2D 1H-1H TOCSYnot availablenot availablenot available
2D 1H-15N HSQCnot availablenot availablenot available
2D 1H-15N HSQC long rangenot availablenot availablenot available
2D 1H-13C HSQC/HMQCnot availablenot availablenot available
3D HNCOnot availablenot availablenot available
3D HNCACBnot availablenot availablenot available
3D CBCA(CO)NHnot availablenot availablenot available
3D HNHAnot availablenot availablenot available
3D HNHBnot availablenot availablenot available
2D HNCOCG aromnot availablenot availablenot available
2D HNCO aromnot availablenot availablenot available
3D 15N-edited NOESYnot availablenot availablenot available
4D 15N,13C NOESYnot availablenot availablenot available
4D 13C,13C NOESYnot availablenot availablenot available

Software:

nmrpipe - processing

nmrview v4.1.1 - assignment

NMR spectrometers:

  • Bruker DMX 500 MHz
  • Bruker DMX 600 MHz
  • Bruker DRX 600 MHz
  • Bruker DMX 750 MHz
  • Bruker DRX 800 MHz

Related Database Links:

BMRB 5341
PDB
EMBL CAA43466
GB ABC71734 ABC71737 ABC71739 ABC71740 ABC71742
REF NP_620741
SP P27260