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This gene has the annotation "phosphate transport system regulator PhoU, putative".
The target was selected as part of JMC's first set.
Available sections:
| Experiment | Result | User | Experiment Date |
|---|---|---|---|
| Selected | Done | jmc | 2001-08-28 |
| Cloned | Done | blgold | 2002-08-28 |
| Expression tested | Done | r_kim | 2002-11-14 |
| Solubility tested | S | dhshin | 2003-11-12 |
| Purified | Done | dhshin | 2003-11-12 |
| Crystallized | Done | dhshin | 2003-11-12 |
| Diffraction quality crystals | Done | dhshin | 2003-11-12 |
| Native diffraction data | Done | dhshin | 2003-11-12 |
| Phasing diffraction data | Done | dhshin | 2004-01-21 |
| Traceable map | Done | dhshin | 2004-01-21 |
| Crystal structure | Done | dhshin | 2004-03-03 |
| In PDB | 1SUM | dhshin | 2004-03-26 |
| MP gene | log10(PSIBLAST E) | % identical | % coverage (of MP gene) |
|---|---|---|---|
| MP234 / MPN608 | -24.30 | 17.56 | 87.23 |
GTGAATAGACTCTTAAACGAAAAGGTGGAAGAATTCAAGAAAGGCGTTCTCAAAGCGGGATGGTTCATAGAAAAGATGTT CAGAAACTCCATATCCTCACTTGTCGAAAGAAACGAGTCCCTCGCCAGGGAAGTGATCGCAGATGAAGAGGTTGTCGATC AGATGGAAGTGGAGATTCAGGAAAAAGCAATGGAGGTGCTCGGCCTCTTTTCTCCCATAGGAAAGCCCCTTCTCACAGTA ACAGCGGGTATAAGGGTGGCAGAGCTCATTGAAAATATAGCCGACAAATGCCATGACATCGCAAAGAACGTCCTTGAACT CATGGAAGAACCTCCCTTGAAACCTCTCGAAGACATTCCAGCCATGGCGAATCAAACTTCAGAAATGTTGAAGTTCGCTC TCAGGATGTTCGCCGATGTGAACGTAGAAAAGTCTTTCGAAGTTTGCAGGATGGATTCGAAGGTTGATGACCTGTACGAG AAGGTGCGTGAAGAACTCTTGCTCTACATGATGGAGTCACCCAAATATGTGAAAAGGGCTCTTCTCCTCTTAGAAATAGC CGGCAACATAGAGATCATAGCCGATTACGCCACCAACATCGTGGAAGTCTCCGTTTACATGGTTCAGGGAGAGGCCTACA AGTGCTACCACGATGAACTCCTTCTCTTCAAAAAATCCGGAGGGGTGCTCTTTGAAAGTTCTGATTAA
(236 codons) fields: [triplet] [frequency: per thousand] ([number]) UUU8.5( 2) UCU12.7( 3) UAU4.2( 1) UGU0.0( 0) UUC29.7( 7) UCC21.2( 5) UAC25.4( 6) UGC12.7( 3) UUA8.5( 2) UCA12.7( 3) UAA4.2( 1) UGA0.0( 0) UUG12.7( 3) UCG4.2( 1) UAG0.0( 0) UGG4.2( 1) CUU21.2( 5) CCU8.5( 2) CAU4.2( 1) CGU4.2( 1) CUC72.0( 17) CCC16.9( 4) CAC4.2( 1) CGC0.0( 0) CUA0.0( 0) CCA4.2( 1) CAA4.2( 1) CGA0.0( 0) CUG4.2( 1) CCG0.0( 0) CAG12.7( 3) CGG0.0( 0) AUU12.7( 3) ACU4.2( 1) AAU12.7( 3) AGU4.2( 1) AUC16.9( 4) ACC4.2( 1) AAC29.7( 7) AGC0.0( 0) AUA33.9( 8) ACA8.5( 2) AAA38.1( 9) AGA12.7( 3) AUG46.6( 11) ACG0.0( 0) AAG42.4( 10) AGG21.2( 5) GUU25.4( 6) GCU8.5( 2) GAU33.9( 8) GGU4.2( 1) GUC16.9( 4) GCC33.9( 8) GAC16.9( 4) GGC12.7( 3) GUA8.5( 2) GCA16.9( 4) GAA97.5( 23) GGA16.9( 4) GUG46.6( 11) GCG12.7( 3) GAG38.1( 9) GGG4.2( 1)
Note: These were generated using Hisao's algorithm, and do not take into account possible mispriming, self-complementarity, or requirements for mutations anywhere in the sequences. The -R1 primers are for the N-terminal end, and begin with an NdeI restriction site (CATATG). The -R2 primers are for the C-terminal end, and begin with a BamHI site (GGATCC) if the target has no other BamHI sites. If the target does have a BamHI site, the -R2 primer wil begin with a BglII site (AGATCT), unless the target has no BglII sites. If the target has both sites, the design program gives up and doesn't prepend a restriction site to the -R2 primer!
Predicted Tm was obtained using the Tm determination tool at the Virtual Genome Center.
| Primer ID | Predicted Tm | sequence |
|---|---|---|
| 1170B-R1 | 62.10 | CATATGAATAGACTCTTAAACGAAAAGGTGG |
| 1170B-R2 | 60.00 | GGATCCTTAATCAGAACTTTCAAAGAGCACC |
| 1170B-R10 | 63.40 | GGCGGTGGTGGCGGCATGAATAGACTCTTAAACGAAAAGGTGGA |
| 1170B-R11 | 64.80 | GTTCTTCTCCTTTGCGCCCCTAATCAGAACTTTCAAAGAGCACCCC |
Note: This was generated using the standard codon usage table; UGA codons in MP/MP genes will show up as terminators ("*")
gtgaatagactcttaaacgaaaaggtggaagaattcaagaaaggcgttctcaaagcggga V N R L L N E K V E E F K K G V L K A G tggttcatagaaaagatgttcagaaactccatatcctcacttgtcgaaagaaacgagtcc W F I E K M F R N S I S S L V E R N E S ctcgccagggaagtgatcgcagatgaagaggttgtcgatcagatggaagtggagattcag L A R E V I A D E E V V D Q M E V E I Q gaaaaagcaatggaggtgctcggcctcttttctcccataggaaagccccttctcacagta E K A M E V L G L F S P I G K P L L T V acagcgggtataagggtggcagagctcattgaaaatatagccgacaaatgccatgacatc T A G I R V A E L I E N I A D K C H D I gcaaagaacgtccttgaactcatggaagaacctcccttgaaacctctcgaagacattcca A K N V L E L M E E P P L K P L E D I P gccatggcgaatcaaacttcagaaatgttgaagttcgctctcaggatgttcgccgatgtg A M A N Q T S E M L K F A L R M F A D V aacgtagaaaagtctttcgaagtttgcaggatggattcgaaggttgatgacctgtacgag N V E K S F E V C R M D S K V D D L Y E aaggtgcgtgaagaactcttgctctacatgatggagtcacccaaatatgtgaaaagggct K V R E E L L L Y M M E S P K Y V K R A cttctcctcttagaaatagccggcaacatagagatcatagccgattacgccaccaacatc L L L L E I A G N I E I I A D Y A T N I gtggaagtctccgtttacatggttcagggagaggcctacaagtgctaccacgatgaactc V E V S V Y M V Q G E A Y K C Y H D E L cttctcttcaaaaaatccggaggggtgctctttgaaagttctgattaa L L F K K S G G V L F E S S D *
MNRLLNEKVEEFKKGVLKAGWFIEKMFRNSISSLVERNESLAREVIADEEVVDQMEVEIQEKAMEVLGLFSPIGKPLLTV TAGIRVAELIENIADKCHDIAKNVLELMEEPPLKPLEDIPAMANQTSEMLKFALRMFADVNVEKSFEVCRMDSKVDDLYE KVREELLLYMMESPKYVKRALLLLEIAGNIEIIADYATNIVEVSVYMVQGEAYKCYHDELLLFKKSGGVLFESSD
This information was obtained using the Protein Parameters tool on the ExPASy Molecular Biology Server.
Number of amino acids: 235
Molecular weight: 26821.2
Theoretical pI: 4.70
Amino acid composition:
Ala (A) 17 7.2%
Arg (R) 9 3.8%
Asn (N) 10 4.3%
Asp (D) 12 5.1%
Cys (C) 3 1.3%
Gln (Q) 4 1.7%
Glu (E) 32 13.6%
Gly (G) 9 3.8%
His (H) 2 0.9%
Ile (I) 15 6.4%
Leu (L) 28 11.9%
Lys (K) 19 8.1%
Met (M) 12 5.1%
Phe (F) 9 3.8%
Pro (P) 7 3.0%
Ser (S) 13 5.5%
Thr (T) 4 1.7%
Trp (W) 1 0.4%
Tyr (Y) 7 3.0%
Val (V) 22 9.4%
Asx (B) 0 0.0%
Glx (Z) 0 0.0%
Xaa (X) 0 0.0%
Total number of negatively charged residues (Asp + Glu): 44
Total number of positively charged residues (Arg + Lys): 28
Atomic composition:
Carbon C 1199
Hydrogen H 1930
Nitrogen N 300
Oxygen O 362
Sulfur S 15
Formula: C1199H1930N300O362S15
Total number of atoms: 3806
Extinction coefficients:
Conditions: 6.0 M guanidium hydrochloride
0.02 M phosphate buffer
pH 6.5
Extinction coefficients are in units of M-1 cm-1 .
The first table lists values computed assuming ALL Cys
residues appear as half cystines, whereas the second table
assumes that NONE do.
276 278 279 280 282
nm nm nm nm nm
Ext. coefficient 15695 15527 15195 14770 14120
Abs 0.1% (=1 g/l) 0.585 0.579 0.567 0.551 0.526
276 278 279 280 282
nm nm nm nm nm
Ext. coefficient 15550 15400 15075 14650 14000
Abs 0.1% (=1 g/l) 0.580 0.574 0.562 0.546 0.522
Estimated half-life:
The N-terminal of the sequence considered is M (Met).
The estimated half-life is: 30 hours (mammalian reticulocytes, in vitro).
>20 hours (yeast, in vivo).
>10 hours (Escherichia coli, in vivo).
Instability index:
The instability index (II) is computed to be 44.01
This classifies the protein as unstable.
Aliphatic index: 105.74
Grand average of hydropathicity (GRAVY): -0.041