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This gene has the annotation "conserved hypothetical protein".
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 | r_kim | 2002-03-29 |
| Expression tested | Done | r_kim | 2002-03-29 |
| Solubility tested | S | r_kim | 2002-03-29 |
| Purified | Done | dhshin | 2002-08-27 |
| Crystallized | Done | dhshin | 2002-08-27 |
| Diffraction quality crystals | Done | dhshin | 2002-11-21 |
| Native diffraction data | Done | dhshin | 2002-11-21 |
| Phasing diffraction data | Done | dhshin | 2002-11-21 |
| Traceable map | Done | dhshin | 2003-03-18 |
| Crystal structure | Done | dhshin | 2003-06-04 |
| In PDB | 1Q8C | dhshin | 2003-12-15 |
| MP gene | log10(PSIBLAST E) | % identical | % coverage (of MP gene) |
|---|---|---|---|
| MP124 / MPN030 | -70.40 | 73.47 | 97.35 |
ATGGCAATTACCGTGAAAGGTTTAACAAATAAATTAACTAGAACCCAAAGACGAATTGCTGTAGTGGAATTTATCTTTTC TCTCCTCTTTTTCTTACCTAAAGAAGCTGAAGTTATTCAAGCAGATTTTTTAGAGTATGATACTAAAGAACGACAACTAA ATGAATGACAAAAACTAATTGTTAAAGCATTTAGTGAAAATATCTTCTCTTTTCAAAAGAAAATTGAAGAACAACAATTG AAAAATCAATTAGAAATTCAAACTAAATACAATAAAATATCAGGAAAAAAGATTGATCTTTTAACTACTGCAGTTGTTTT ATGTGCACTTAGTGAACAAAAGGCACATAATACTGATAAACCACTTTTAATTAGTGAGGCATTGTTGATTATGGATCATT ATTCACAAGGTGCTGAAAAAAAACAAACTCATGCTTTATTAGATAAGCTCTTGTAA
(152 codons) fields: [triplet] [frequency: per thousand] ([number]) UUU39.5( 6) UCU13.2( 2) UAU13.2( 2) UGU6.6( 1) UUC13.2( 2) UCC0.0( 0) UAC6.6( 1) UGC0.0( 0) UUA65.8( 10) UCA13.2( 2) UAA6.6( 1) UGA6.6( 1) UUG26.3( 4) UCG0.0( 0) UAG0.0( 0) UGG0.0( 0) CUU19.7( 3) CCU6.6( 1) CAU19.7( 3) CGU0.0( 0) CUC19.7( 3) CCC0.0( 0) CAC0.0( 0) CGC0.0( 0) CUA13.2( 2) CCA6.6( 1) CAA78.9( 12) CGA13.2( 2) CUG0.0( 0) CCG0.0( 0) CAG0.0( 0) CGG0.0( 0) AUU59.2( 9) ACU46.1( 7) AAU39.5( 6) AGU19.7( 3) AUC13.2( 2) ACC13.2( 2) AAC0.0( 0) AGC0.0( 0) AUA6.6( 1) ACA6.6( 1) AAA92.1( 14) AGA13.2( 2) AUG13.2( 2) ACG0.0( 0) AAG26.3( 4) AGG0.0( 0) GUU26.3( 4) GCU26.3( 4) GAU39.5( 6) GGU13.2( 2) GUC0.0( 0) GCC0.0( 0) GAC0.0( 0) GGC0.0( 0) GUA6.6( 1) GCA46.1( 7) GAA72.4( 11) GGA6.6( 1) GUG13.2( 2) GCG0.0( 0) GAG13.2( 2) GGG0.0( 0)
Details (problem DNA region is in upper case, with the key on the line below):
Key:
atggcaattaccgtgaaaggtttaacaaataaattaactagaacccaaagacgaattgct
gtagtggaatttatcttttctctcctctttttcttacctaaagaagctgaagttattcaa
gcagattttttagagtatgatactaaagaacgacaactaaatgaaTGAcaaaaactaatt
U
gttaaagcatttagtgaaaatatcttctcttttcaaaagaaaattgaagaacaacaattg
aaaaatcaattagaaattcaaactaaatacaataaaatatcaggaaaaaagattgatctt
ttaactactgcagttgttttatgtgcacttagtgaacaaaaggcacataatactgataaa
ccacttttaattagtgaggcattgttgattatggatcattattcacaaggtgctgaaaaa
aaacaaactcatgctttattagataagctcttgtaa
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 |
|---|---|---|
| 1172B-R1 | 60.40 | CATATGGCAATTACCGTGAAAGGT |
| 1172B-R2 | 60.60 | GGATCCTTACAAGAGCTTATCTAATAAAGCATGAGTT |
| 1172B-R10 | 63.60 | GGCGGTGGTGGCGGCATGGCAATTACCGTGAAAGGTTTAA |
| 1172B-R11 | 63.00 | GTTCTTCTCCTTTGCGCCCCTACAAGAGCTTATCTAATAAAGCATGAGTTTGT |
| 1172B-R14 | 68.20 | CGACAACTAAATGAATGGCAAAAACTAATTGTTAA |
| 1172B-R15 | 68.20 | TTAACAATTAGTTTTTGCCATTCATTTAGTTGTCG |
Note: This was generated using the standard codon usage table; UGA codons in MP/MP genes will show up as terminators ("*")
atggcaattaccgtgaaaggtttaacaaataaattaactagaacccaaagacgaattgct M A I T V K G L T N K L T R T Q R R I A gtagtggaatttatcttttctctcctctttttcttacctaaagaagctgaagttattcaa V V E F I F S L L F F L P K E A E V I Q gcagattttttagagtatgatactaaagaacgacaactaaatgaatgacaaaaactaatt A D F L E Y D T K E R Q L N E * Q K L I gttaaagcatttagtgaaaatatcttctcttttcaaaagaaaattgaagaacaacaattg V K A F S E N I F S F Q K K I E E Q Q L aaaaatcaattagaaattcaaactaaatacaataaaatatcaggaaaaaagattgatctt K N Q L E I Q T K Y N K I S G K K I D L ttaactactgcagttgttttatgtgcacttagtgaacaaaaggcacataatactgataaa L T T A V V L C A L S E Q K A H N T D K ccacttttaattagtgaggcattgttgattatggatcattattcacaaggtgctgaaaaa P L L I S E A L L I M D H Y S Q G A E K aaacaaactcatgctttattagataagctcttgtaa K Q T H A L L D K L L *
MAITVKGLTNKLTRTQRRIAVVEFIFSLLFFLPKEAEVIQADFLEYDTKERQLNEWQKLIVKAFSENIFSFQKKIEEQQL KNQLEIQTKYNKISGKKIDLLTTAVVLCALSEQKAHNTDKPLLISEALLIMDHYSQGAEKKQTHALLDKLL
This information was obtained using the Protein Parameters tool on the ExPASy Molecular Biology Server.
Number of amino acids: 151
Molecular weight: 17480.4
Theoretical pI: 8.91
Amino acid composition:
Ala (A) 11 7.3%
Arg (R) 4 2.6%
Asn (N) 6 4.0%
Asp (D) 6 4.0%
Cys (C) 1 0.7%
Gln (Q) 12 7.9%
Glu (E) 13 8.6%
Gly (G) 3 2.0%
His (H) 3 2.0%
Ile (I) 12 7.9%
Leu (L) 22 14.6%
Lys (K) 18 11.9%
Met (M) 2 1.3%
Phe (F) 8 5.3%
Pro (P) 2 1.3%
Ser (S) 7 4.6%
Thr (T) 10 6.6%
Trp (W) 1 0.7%
Tyr (Y) 3 2.0%
Val (V) 7 4.6%
Asx (B) 0 0.0%
Glx (Z) 0 0.0%
Xaa (X) 0 0.0%
Total number of negatively charged residues (Asp + Glu): 19
Total number of positively charged residues (Arg + Lys): 22
Atomic composition:
Carbon C 795
Hydrogen H 1292
Nitrogen N 206
Oxygen O 228
Sulfur S 3
Formula: C795H1292N206O228S3
Total number of atoms: 2524
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 9750 9800 9695 9530 9200
Abs 0.1% (=1 g/l) 0.558 0.561 0.555 0.545 0.526
276 278 279 280 282
nm nm nm nm nm
Ext. coefficient 9750 9800 9695 9530 9200
Abs 0.1% (=1 g/l) 0.558 0.561 0.555 0.545 0.526
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 31.67
This classifies the protein as stable.
Aliphatic index: 108.54
Grand average of hydropathicity (GRAVY): -0.223