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This gene has the annotation "transcriptional regulator (PhoU-like)".
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 | 2002-12-30 |
| Solubility tested | S | r_kim | 2003-06-04 |
| Purified | Done | r_kim | 2003-06-04 |
| Crystallized | Done | dhshin | 2003-06-05 |
| Diffraction quality crystals | Done | dhshin | 2004-01-27 |
| Native diffraction data | Done | dhshin | 2004-01-27 |
| Phasing diffraction data | Done | dhshin | 2004-01-27 |
| Traceable map | Done | dhshin | 2004-02-17 |
| Crystal structure | Done | dhshin | 2004-05-11 |
| In PDB | 1T72 1T8B | dhshin | 2004-05-11 |
| Suggested work stop | 23722 23722 23722 23722 23722 23722 23722 | dallen | 2004-02-10 |
| Override suggest work stop | Structure determined | dhshin | 2004-02-17 |
| MP gene | log10(PSIBLAST E) | % identical | % coverage (of MP gene) |
|---|---|---|---|
| MP234 / MPN608 | -24.30 | 16.91 | 93.67 |
ATGAAACTCTTCAAAGAACTTGAAGAGACAAAGGAACAGGTAATAAAAATGGCAAAACTCGTCCAGGAGGCCATAGACAA AGCCACGGAAGCCCTGAACAAACAAAACGTGGAACTGGCGGAAGAAGTGATAAAGGGTGATGACACGATAGACCTCCTTG AGGTTGACATAGAGAGAAGGTGTATAAGGATGATAGCCCTGTACCAGCCCGAAGCCGGAGACCTCAGGATGATAATGGGG ATATACAAGATAGTTTCCGACCTTGAGAGAATGGGAGATGAGGCGGAAAACATAGCCGAAAGGGCAATCCTTCTGGCAGA AGAACCCCCTCTAAAACCTTACGTGAACATAAACTTCATGTCCGAAATAGTAAAGGAAATGGTAAACGACAGCGTAATTT CCTTCATACAGCAAGACACACTTCTCGCAAAAAAAGTAATAGAGAAGGACGATACTGTGGACGAACTCTACCACCAGCTC GAACGTGAACTCATGACTTACGTTTTAGAGGACCCGAGAAACATAAAGAGAGCTATGCACCTCTCTTTCGTTGCAAGGCA TTACGAGAGGATAGCGGATCACGCGGAAAACGTCGCGGAAGCTGCTATATACCTGTCCGAGGGCGAAATAGTAAAACACC AGCACATAAAAGAAAAGGGTGAATAA
(222 codons) fields: [triplet] [frequency: per thousand] ([number]) UUU0.0( 0) UCU4.5( 1) UAU0.0( 0) UGU4.5( 1) UUC18.0( 4) UCC18.0( 4) UAC31.5( 7) UGC0.0( 0) UUA4.5( 1) UCA0.0( 0) UAA4.5( 1) UGA0.0( 0) UUG0.0( 0) UCG0.0( 0) UAG0.0( 0) UGG0.0( 0) CUU22.5( 5) CCU9.0( 2) CAU4.5( 1) CGU4.5( 1) CUC40.5( 9) CCC9.0( 2) CAC22.5( 5) CGC0.0( 0) CUA4.5( 1) CCA0.0( 0) CAA9.0( 2) CGA0.0( 0) CUG22.5( 5) CCG4.5( 1) CAG27.0( 6) CGG0.0( 0) AUU4.5( 1) ACU9.0( 2) AAU0.0( 0) AGU0.0( 0) AUC4.5( 1) ACC0.0( 0) AAC36.0( 8) AGC4.5( 1) AUA90.1( 20) ACA9.0( 2) AAA49.5( 11) AGA18.0( 4) AUG45.0( 10) ACG9.0( 2) AAG31.5( 7) AGG27.0( 6) GUU18.0( 4) GCU13.5( 3) GAU18.0( 4) GGU9.0( 2) GUC9.0( 2) GCC27.0( 6) GAC49.5( 11) GGC4.5( 1) GUA27.0( 6) GCA22.5( 5) GAA99.1( 22) GGA9.0( 2) GUG18.0( 4) GCG22.5( 5) GAG45.0( 10) GGG4.5( 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 |
|---|---|---|
| 1105B-R1 | 61.30 | CATATGAAACTCTTCAAAGAACTTGAAGAGA |
| 1105B-R2 | 60.50 | GGATCCTTATTCACCCTTTTCTTTTATGTGCT |
| 1105B-R10 | 64.00 | GGCGGTGGTGGCGGCATGAAACTCTTCAAAGAACTTGAAGAGACA |
| 1105B-R11 | 64.30 | GTTCTTCTCCTTTGCGCCCCTATTCACCCTTTTCTTTTATGTGCTGG |
Note: This was generated using the standard codon usage table; UGA codons in MP/MP genes will show up as terminators ("*")
atgaaactcttcaaagaacttgaagagacaaaggaacaggtaataaaaatggcaaaactc M K L F K E L E E T K E Q V I K M A K L gtccaggaggccatagacaaagccacggaagccctgaacaaacaaaacgtggaactggcg V Q E A I D K A T E A L N K Q N V E L A gaagaagtgataaagggtgatgacacgatagacctccttgaggttgacatagagagaagg E E V I K G D D T I D L L E V D I E R R tgtataaggatgatagccctgtaccagcccgaagccggagacctcaggatgataatgggg C I R M I A L Y Q P E A G D L R M I M G atatacaagatagtttccgaccttgagagaatgggagatgaggcggaaaacatagccgaa I Y K I V S D L E R M G D E A E N I A E agggcaatccttctggcagaagaaccccctctaaaaccttacgtgaacataaacttcatg R A I L L A E E P P L K P Y V N I N F M tccgaaatagtaaaggaaatggtaaacgacagcgtaatttccttcatacagcaagacaca S E I V K E M V N D S V I S F I Q Q D T cttctcgcaaaaaaagtaatagagaaggacgatactgtggacgaactctaccaccagctc L L A K K V I E K D D T V D E L Y H Q L gaacgtgaactcatgacttacgttttagaggacccgagaaacataaagagagctatgcac E R E L M T Y V L E D P R N I K R A M H ctctctttcgttgcaaggcattacgagaggatagcggatcacgcggaaaacgtcgcggaa L S F V A R H Y E R I A D H A E N V A E gctgctatatacctgtccgagggcgaaatagtaaaacaccagcacataaaagaaaagggt A A I Y L S E G E I V K H Q H I K E K G gaataa E *
MKLFKELEETKEQVIKMAKLVQEAIDKATEALNKQNVELAEEVIKGDDTIDLLEVDIERRCIRMIALYQPEAGDLRMIMG IYKIVSDLERMGDEAENIAERAILLAEEPPLKPYVNINFMSEIVKEMVNDSVISFIQQDTLLAKKVIEKDDTVDELYHQL ERELMTYVLEDPRNIKRAMHLSFVARHYERIADHAENVAEAAIYLSEGEIVKHQHIKEKGE
This information was obtained using the Protein Parameters tool on the ExPASy Molecular Biology Server.
Number of amino acids: 221
Molecular weight: 25567.4
Theoretical pI: 4.81
Amino acid composition:
Ala (A) 19 8.6%
Arg (R) 11 5.0%
Asn (N) 8 3.6%
Asp (D) 15 6.8%
Cys (C) 1 0.5%
Gln (Q) 8 3.6%
Glu (E) 32 14.5%
Gly (G) 6 2.7%
His (H) 6 2.7%
Ile (I) 22 10.0%
Leu (L) 21 9.5%
Lys (K) 18 8.1%
Met (M) 10 4.5%
Phe (F) 4 1.8%
Pro (P) 5 2.3%
Ser (S) 6 2.7%
Thr (T) 6 2.7%
Trp (W) 0 0.0%
Tyr (Y) 7 3.2%
Val (V) 16 7.2%
Asx (B) 0 0.0%
Glx (Z) 0 0.0%
Xaa (X) 0 0.0%
Total number of negatively charged residues (Asp + Glu): 47
Total number of positively charged residues (Arg + Lys): 29
Atomic composition:
Carbon C 1128
Hydrogen H 1834
Nitrogen N 300
Oxygen O 351
Sulfur S 11
Formula: C1128H1834N300O351S11
Total number of atoms: 3624
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 10150 9800 9415 8960 8400
Abs 0.1% (=1 g/l) 0.397 0.383 0.368 0.350 0.329
276 278 279 280 282
nm nm nm nm nm
Ext. coefficient 10150 9800 9415 8960 8400
Abs 0.1% (=1 g/l) 0.397 0.383 0.368 0.350 0.329
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 44.11
This classifies the protein as unstable.
Aliphatic index: 105.48
Grand average of hydropathicity (GRAVY): -0.339