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PangenomeCOLN315NCTC8325NewmanUSA300_FPR375704-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159JSNZLGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40
⊟Summary[edit | edit source]
- pan ID?: SAUPAN001769000
- symbol?: —
- synonym:
- description?: phi-like protein
- phi-like protein
- VRR-NUC domain-containing protein
- phi phage protein
- phi related protein
- VRR-NUC
descriptions from strain specific annotations:
- strand?: -
- coordinates?: 2194938..2195251
- synteny block?: BlockID0011680
- occurrence?: in 41% of 34 strains
vrr (vrr-nuc) : prophage replication-repair nuclease-resolvase [1]
Most staphylococcal prophage replicate in two stages: unidirectional (theta) replication to form the initial replication bubble, followed by pausing, viral replication restart and transition into sigma replication which is recombination protein-dependent and allows generation of long genomic concatemers. This transition frequently results in duplex-DNA structures (Holliday junctions) that need to be resolved. Replication-repair nuclease-resolvases resolve duplex DNA allowing viral replication restart to continue. This nuclease-resolvase is vrr-nuc-like. Other paralogues may be RusA-like or DUF1064-like.
⊟Orthologs[edit | edit source]
04-02981:
—
08BA02176:
C248_0344
11819-97:
MS7_1473
6850:
—
71193:
—
ECT-R 2:
—
ED133:
—
ED98:
—
HO 5096 0412:
SAEMRSA15_13790
JH1:
SaurJH1_1074
JH9:
SaurJH9_1054
JKD6008:
—
JKD6159:
SAA6159_01383
JSNZ:
—
LGA251:
—
M013:
—
MRSA252:
SAR1524
MSHR1132:
—
MSSA476:
SAS0927
Mu3:
—
Mu50:
—
MW2:
MW1406
RF122:
—
ST398:
SAPIG0368
T0131:
—
TCH60:
HMPREF0772_11685
TW20:
—
USA300_TCH1516:
USA300HOU_1457
VC40:
—
⊟Genome Viewer[edit | edit source]
| NCTC8325 | |
| USA300_FPR3757 |
⊟Alignments[edit | edit source]
- alignment of orthologues: CLUSTAL format alignment by MAFFT L-INS-i (v7.307)
NCTC8325 MKESTLEKYLVKEITKLNGLCLKWVAPGTRGVPDRIIIMPEGKTYFVEMKQEKGKLHPLQ
USA300_FPR3757 MKESTLEKYLVKEISKLNGLCLKWVAPGTRGVPDRIIIMPEGKTYFVEMKQEKGKLHPLQ
**************:*********************************************
NCTC8325 KYVHRQFENRDHKVYVLWNKEQVNTFIRMVGGTFGD
USA300_FPR3757 KYVHRQFENRDHKVYVLWNKEQVNTFIRMVGGTFGD
************************************
- ↑ Lisa N Kinch, Krzysztof Ginalski, Leszek Rychlewski, Nick V Grishin
Identification of novel restriction endonuclease-like fold families among hypothetical proteins.
Nucleic Acids Res: 2005, 33(11);3598-605
[PubMed:15972856] [WorldCat.org] [DOI] (I e)Mindaugas Laganeckas, Mindaugas Margelevicius, Ceslovas Venclovas
Identification of new homologs of PD-(D/E)XK nucleases by support vector machines trained on data derived from profile-profile alignments.
Nucleic Acids Res: 2011, 39(4);1187-96
[PubMed:20961958] [WorldCat.org] [DOI] (I p)Ambra Lo Piano, María I Martínez-Jiménez, Lisa Zecchi, Silvia Ayora
Recombination-dependent concatemeric viral DNA replication.
Virus Res: 2011, 160(1-2);1-14
[PubMed:21708194] [WorldCat.org] [DOI] (I p)Lisa Zecchi, Ambra Lo Piano, Yuki Suzuki, Cristina Cañas, Kunio Takeyasu, Silvia Ayora
Characterization of the Holliday junction resolving enzyme encoded by the Bacillus subtilis bacteriophage SPP1.
PLoS One: 2012, 7(10);e48440
[PubMed:23119018] [WorldCat.org] [DOI] (I p)Simon Pennell, Anne-Cécile Déclais, Jiejin Li, Lesley F Haire, Wioletta Berg, José W Saldanha, Ian A Taylor, John Rouse, David M J Lilley, Stephen J Smerdon
FAN1 activity on asymmetric repair intermediates is mediated by an atypical monomeric virus-type replication-repair nuclease domain.
Cell Rep: 2014, 8(1);84-93
[PubMed:24981866] [WorldCat.org] [DOI] (I p)