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CDS Information : SJA_C1-22980

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close this sectionGenomic map

Display Clone

Sphingobium japonicum UT26S (= NBRC 101211) chromosome1

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Overview 
Genome
Clone

close this sectionLocation

Organism Sphingobium japonicum UT26S (= NBRC 101211)
Replicon chromosome1
Start / Stop / Direction 2,315,281 / 2,317,644 / +
Location 2315281..2317644
Type CDS
Length 2,364 bp (787 aa)

close this sectionAnnotation

Product exoribonuclease R
Gene name
Functional category Information pathways
- RNA modification
EC number 3.1.13.1
Note
KEGG pathway
Sequence feature
References

close this sectionComputational search results

BLASTP
Database:UniProtKB:8.8
1E=0Q1N8L8_9SPHNExoribonuclease RAlignment
2E=0Q5NNJ0_ZYMMORibonuclease RAlignment
3E=0Q1GTS6_SPHALRNAse RAlignment
4E=0Q2G6Y5_NOVADRNAse RAlignment
5E=0Q2NAH6_9SPHNExoribonuclease Rby acc
HAMAP No significant hit
InterPro
Database:interpro:16.0
IPR001900 Ribonuclease II and R (Domain)
 [263-609]  1.3e-125 PF00773
PF00773   RNB
 [576-600]  PS01175
PS01175   RIBONUCLEASE_II
IPR003029 S1, RNA binding (Domain)
 [663-748]  8.6e-06 PF00575
PF00575   S1
 [665-744]  5e-07 SM00316
SM00316   no description
 [667-748]  12.192 PS50126
PS50126   S1
IPR004476 RNase II and RNase R, bacteria (Family)
 [86-748]  2.3e-115 TIGR00358
TIGR00358   3_prime_RNase: VacB and RNase II family 3'-
 [175-400]  1.4e-156 PTHR23355:SF9 [419-747]  1.4e-156 PTHR23355:SF9
PTHR23355:SF9   RIBONUCLEASE R
IPR008994 Nucleic acid-binding, OB-fold (Domain)
 [664-771]  4.7e-14 SSF50249
SSF50249   Nucleic acid-binding proteins
IPR011805 Ribonuclease R, bacterial (Family)
 [22-749]  1e-215 TIGR02063
TIGR02063   RNase_R: ribonuclease R
IPR012340 Nucleic acid-binding, OB-fold (Domain)
 [667-774]  3.4e-16 G3DSA:2.40.50.140
G3DSA:2.40.50.140   no description
IPR022966 Ribonuclease II/R, conserved site (Conserved_site)
 [576-600]  PS01175
PS01175   RIBONUCLEASE_II
SignalP No significant hit
TMHMM No significant hit
SOSUI No significant hit

close this sectionCalculated information (Amino acid sequence)

size of protein 787 amino acids
molecular mass 86,401.89 Da
pI 9.02
aa composition
AlaValLeuIlePheTrpProMetGlySer
13.1
(103aa)
7.5
(59aa)
9.1
(72aa)
4.8
(38aa)
2.8
(22aa)
0.9
(7aa)
6.4
(50aa)
2
(16aa)
7.8
(61aa)
4.7
(37aa)
ThrCysAsnGlnTyrLysHisArgAspGlu
3.3
(26aa)
0.4
(3aa)
1.1
(9aa)
1.9
(15aa)
2.2
(17aa)
5.3
(42aa)
2.4
(19aa)
9.8
(77aa)
7.5
(59aa)
7
(55aa)

open this sectionSequence

close this sectionCovered clones

NBRC No. clone name start stop length(bp)
G18-001-101 SP1FE13L00050B06 2,280,854 2,324,596 43,743
G18-001-102 SP1FE13L00051A11 2,309,869 2,342,701 32,833

close this sectionDistribution of Our Microbial Genomic DNA clones

We have been distributing copies of the microbial genomic DNA clones constructed during the course of each of the genomic DNA sequencing projects.
You can find more detailed information at http://www.nbrc.nite.go.jp/e/mdna-e.html.