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This gene has the annotation "thioredoxin (trx)".
The target was selected as part of pre-BSGC set.
Available sections:
| Experiment | Result | User | Experiment Date |
|---|---|---|---|
| Selected | Done | jmc | 2001-09-10 |
| Cloned | Done | abwaight | 2001-09-21 |
| Expression tested | Done | abwaight | 2001-09-21 |
| Solubility tested | S | abwaight | 2001-09-21 |
| Purified | Done | abwaight | 2001-09-21 |
| NMR characterization | Done | abwaight | 2001-09-21 |
| HSQC | Done | abwaight | 2001-09-21 |
| NMR structure | Done | abwaight | 2001-09-21 |
| In PDB | 1FO5 | abwaight | 2001-09-21 |
| Biochemical function | Done | dhshin | 2001-09-20 |
| MP gene | log10(PSIBLAST E) | % identical | % coverage (of MP gene) |
|---|---|---|---|
| MP570 / MPN263 | -23.00 | 26.58 | 92.94 |
ATGTCAAAGGTAAAGATAGAGCTTTTTACATCACCAATGTGTCCTCACTGTCCTGCAGCTAAAAGAGTTGTTGAAGAGGT AGCAAATGAAATGCCGGATGCTGTTGAAGTAGAATACATAAACGTTATGGAGAATCCTCAAAAGGCAATGGAATATGGGA TAATGGCAGTTCCAACAATTGTAATAAATGGGGATGTTGAGTTTATTGGAGCTCCTACAAAGGAGGCATTAGTTGAGGCA ATCAAAAAAAGACTATAA
(86 codons) fields: [triplet] [frequency: per thousand] ([number]) UUU23.3( 2) UCU0.0( 0) UAU11.6( 1) UGU23.3( 2) UUC0.0( 0) UCC0.0( 0) UAC11.6( 1) UGC0.0( 0) UUA11.6( 1) UCA23.3( 2) UAA11.6( 1) UGA0.0( 0) UUG0.0( 0) UCG0.0( 0) UAG0.0( 0) UGG0.0( 0) CUU11.6( 1) CCU46.5( 4) CAU0.0( 0) CGU0.0( 0) CUC0.0( 0) CCC0.0( 0) CAC11.6( 1) CGC0.0( 0) CUA11.6( 1) CCA23.3( 2) CAA11.6( 1) CGA0.0( 0) CUG0.0( 0) CCG11.6( 1) CAG0.0( 0) CGG0.0( 0) AUU23.3( 2) ACU0.0( 0) AAU34.9( 3) AGU0.0( 0) AUC11.6( 1) ACC0.0( 0) AAC11.6( 1) AGC0.0( 0) AUA46.5( 4) ACA34.9( 3) AAA34.9( 3) AGA23.3( 2) AUG69.8( 6) ACG0.0( 0) AAG46.5( 4) AGG0.0( 0) GUU81.4( 7) GCU34.9( 3) GAU23.3( 2) GGU0.0( 0) GUC0.0( 0) GCC0.0( 0) GAC0.0( 0) GGC0.0( 0) GUA46.5( 4) GCA69.8( 6) GAA58.1( 5) GGA11.6( 1) GUG0.0( 0) GCG0.0( 0) GAG69.8( 6) GGG23.3( 2)
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 |
|---|---|---|
| 1196B-R1 | 61.20 | CATATGTCAAAGGTAAAGATAGAGCTTTTTACA |
| 1196B-R2 | 60.20 | GGATCCTTATAGTCTTTTTTTGATTGCCTCAAC |
| 1196B-R10 | 64.40 | GGCGGTGGTGGCGGCATGTCAAAGGTAAAGATAGAGCTTTTTACATCA |
| 1196B-R11 | 65.30 | GTTCTTCTCCTTTGCGCCCCTATAGTCTTTTTTTGATTGCCTCAACTAATGC |
Note: This was generated using the standard codon usage table; UGA codons in MP/MP genes will show up as terminators ("*")
atgtcaaaggtaaagatagagctttttacatcaccaatgtgtcctcactgtcctgcagct M S K V K I E L F T S P M C P H C P A A aaaagagttgttgaagaggtagcaaatgaaatgccggatgctgttgaagtagaatacata K R V V E E V A N E M P D A V E V E Y I aacgttatggagaatcctcaaaaggcaatggaatatgggataatggcagttccaacaatt N V M E N P Q K A M E Y G I M A V P T I gtaataaatggggatgttgagtttattggagctcctacaaaggaggcattagttgaggca V I N G D V E F I G A P T K E A L V E A atcaaaaaaagactataa I K K R L *
MSKVKIELFTSPMCPHCPAAKRVVEEVANEMPDAVEVEYINVMENPQKAMEYGIMAVPTIVINGDVEFIGAPTKEALVEA IKKRL
This information was obtained using the Protein Parameters tool on the ExPASy Molecular Biology Server.
Number of amino acids: 85
Molecular weight: 9404.0
Theoretical pI: 4.92
Amino acid composition:
Ala (A) 9 10.6%
Arg (R) 2 2.4%
Asn (N) 4 4.7%
Asp (D) 2 2.4%
Cys (C) 2 2.4%
Gln (Q) 1 1.2%
Glu (E) 11 12.9%
Gly (G) 3 3.5%
His (H) 1 1.2%
Ile (I) 7 8.2%
Leu (L) 3 3.5%
Lys (K) 7 8.2%
Met (M) 6 7.1%
Phe (F) 2 2.4%
Pro (P) 7 8.2%
Ser (S) 2 2.4%
Thr (T) 3 3.5%
Trp (W) 0 0.0%
Tyr (Y) 2 2.4%
Val (V) 11 12.9%
Asx (B) 0 0.0%
Glx (Z) 0 0.0%
Xaa (X) 0 0.0%
Total number of negatively charged residues (Asp + Glu): 13
Total number of positively charged residues (Arg + Lys): 9
Atomic composition:
Carbon C 417
Hydrogen H 679
Nitrogen N 105
Oxygen O 124
Sulfur S 8
Formula: C417H679N105O124S8
Total number of atoms: 1333
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 3045 2927 2810 2680 2520
Abs 0.1% (=1 g/l) 0.324 0.311 0.299 0.285 0.268
276 278 279 280 282
nm nm nm nm nm
Ext. coefficient 2900 2800 2690 2560 2400
Abs 0.1% (=1 g/l) 0.308 0.298 0.286 0.272 0.255
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 45.90
This classifies the protein as unstable.
Aliphatic index: 94.00
Grand average of hydropathicity (GRAVY): 0.072