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This gene has the annotation "conserved hypothetical protein".
The target was selected as part of Igor's sets.
Available sections:
| Experiment | Result | User | Experiment Date |
|---|---|---|---|
| Selected | Done | jmc | 2001-08-24 |
| Cloned | Done | abwaight | 2001-08-24 |
| Expression tested | Done | abwaight | 2001-08-24 |
| Solubility tested | S | abwaight | 2001-08-24 |
| Purified | Done | abwaight | 2001-08-24 |
| Crystallized | Done | abwaight | 2001-08-24 |
| Diffraction quality crystals | Done | abwaight | 2001-08-24 |
| Native diffraction data | Done | abwaight | 2001-08-24 |
| Phasing diffraction data | Done | abwaight | 2001-08-24 |
| Traceable map | Done | abwaight | 2001-08-24 |
| Crystal structure | Done | abwaight | 2001-08-24 |
| In PDB | 1NF2 | dhshin | 2002-12-12 |
| Biochemical function | Done | dhshin | 2002-12-11 |
| MP gene | log10(PSIBLAST E) | % identical | % coverage (of MP gene) |
|---|---|---|---|
| MP290 / MPN552 | -6.22 | 11.43 | 78.36 |
| MP414 / MPN427 | -37.00 | 22.78 | 96.64 |
| MP454 / MPN383 | -44.52 | 21.46 | 97.39 |
| MP456 / MPN381 | -40.10 | 21.37 | 97.76 |
| MP569 / MPN264 | -35.00 | 23.29 | 92.91 |
| MP622 / MPN209 | -4.40 | 17.32 | 94.78 |
TTGTACAGGGTGTTCGTTTTTGACCTGGACGGAACACTTCTCAACGACAACCTGGAGATATCAGAAAAGGACAGAAGAAA CATAGAGAAACTTTCCAGAAAGTGCTATGTTGTCTTTGCAAGCGGAAGAATGCTCGTTTCCACACTGAACGTGGAAAAGA AGTACTTCAAAAGAACCTTTCCAACGATCGCTTACAACGGTGCGATAGTGTACCTTCCAGAAGAAGGCGTGATCCTGAAC GAGAAGATCCCGCCTGAGGTAGCAAAAGACATCATAGAATACATAAAACCGCTCAACGTTCACTGGCAGGCTTACATTGA CGATGTGCTCTACTCCGAAAAGGACAACGAAGAGATAAAAAGCTACGCAAGACACTCGAACGTGGACTACCGCGTTGAAC CGAACCTTTCTGAACTCGTCTCAAAGATGGGAACGACGAAACTTCTTCTCATCGATACCCCGGAAAGACTCGACGAGTTG AAAGAGATTCTCTCTGAAAGGTTCAAAGATGTGGTGAAGGTCTTCAAGTCCTTCCCTACTTACCTTGAAATCGTTCCGAA GAACGTGGACAAGGGAAAGGCCCTGAGGTTTTTGAGAGAGAGGATGAACTGGAAAAAGGAAGAGATCGTCGTCTTCGGTG ACAACGAGAACGACCTGTTCATGTTCGAAGAGGCAGGCCTTCGTGTTGCAATGGAAAACGCCATAGAGAAGGTGAAGGAG GCATCGGATATTGTCACGCTCACTAACAACGATTCTGGTGTGTCTTATGTTCTTGAGCGCATTTCCACAGATTGTCTTGA TGAGTGA
(269 codons) fields: [triplet] [frequency: per thousand] ([number]) UUU14.9( 4) UCU14.9( 4) UAU7.4( 2) UGU3.7( 1) UUC29.7( 8) UCC18.6( 5) UAC37.2( 10) UGC3.7( 1) UUA0.0( 0) UCA7.4( 2) UAA0.0( 0) UGA3.7( 1) UUG11.2( 3) UCG7.4( 2) UAG0.0( 0) UGG7.4( 2) CUU37.2( 10) CCU7.4( 2) CAU0.0( 0) CGU3.7( 1) CUC33.5( 9) CCC0.0( 0) CAC7.4( 2) CGC7.4( 2) CUA0.0( 0) CCA7.4( 2) CAA0.0( 0) CGA0.0( 0) CUG22.3( 6) CCG18.6( 5) CAG3.7( 1) CGG0.0( 0) AUU14.9( 4) ACU7.4( 2) AAU0.0( 0) AGU0.0( 0) AUC26.0( 7) ACC7.4( 2) AAC63.2( 17) AGC7.4( 2) AUA26.0( 7) ACA11.2( 3) AAA33.5( 9) AGA29.7( 8) AUG18.6( 5) ACG14.9( 4) AAG55.8( 15) AGG14.9( 4) GUU29.7( 8) GCU7.4( 2) GAU26.0( 7) GGU11.2( 3) GUC22.3( 6) GCC7.4( 2) GAC44.6( 12) GGC7.4( 2) GUA3.7( 1) GCA22.3( 6) GAA55.8( 15) GGA14.9( 4) GUG40.9( 11) GCG3.7( 1) GAG55.8( 15) GGG0.0( 0)
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 |
|---|---|---|
| 1071B-R1 | 60.30 | CATATGTACAGGGTGTTCGTTTTTGA |
| 1071B-R2 | 60.60 | GGATCCTTATCACTCATGACAATCTGTGGAAA |
| 1071B-R3 | 60.10 | GGATCCTTACTCATCAAGACAATCTGTGGAAAT |
| 1071B-R10 | 64.20 | GGCGGTGGTGGCGGCATGTACAGGGTGTTCGTTTTTGACC |
| 1071B-R11 | 65.70 | GTTCTTCTCCTTTGCGCCCCTACTCATCAAGACAATCTGTGGAAATGC |
Note: This was generated using the standard codon usage table; UGA codons in MP/MP genes will show up as terminators ("*")
ttgtacagggtgttcgtttttgacctggacggaacacttctcaacgacaacctggagata L Y R V F V F D L D G T L L N D N L E I tcagaaaaggacagaagaaacatagagaaactttccagaaagtgctatgttgtctttgca S E K D R R N I E K L S R K C Y V V F A agcggaagaatgctcgtttccacactgaacgtggaaaagaagtacttcaaaagaaccttt S G R M L V S T L N V E K K Y F K R T F ccaacgatcgcttacaacggtgcgatagtgtaccttccagaagaaggcgtgatcctgaac P T I A Y N G A I V Y L P E E G V I L N gagaagatcccgcctgaggtagcaaaagacatcatagaatacataaaaccgctcaacgtt E K I P P E V A K D I I E Y I K P L N V cactggcaggcttacattgacgatgtgctctactccgaaaaggacaacgaagagataaaa H W Q A Y I D D V L Y S E K D N E E I K agctacgcaagacactcgaacgtggactaccgcgttgaaccgaacctttctgaactcgtc S Y A R H S N V D Y R V E P N L S E L V tcaaagatgggaacgacgaaacttcttctcatcgataccccggaaagactcgacgagttg S K M G T T K L L L I D T P E R L D E L aaagagattctctctgaaaggttcaaagatgtggtgaaggtcttcaagtccttccctact K E I L S E R F K D V V K V F K S F P T taccttgaaatcgttccgaagaacgtggacaagggaaaggccctgaggtttttgagagag Y L E I V P K N V D K G K A L R F L R E aggatgaactggaaaaaggaagagatcgtcgtcttcggtgacaacgagaacgacctgttc R M N W K K E E I V V F G D N E N D L F atgttcgaagaggcaggccttcgtgttgcaatggaaaacgccatagagaaggtgaaggag M F E E A G L R V A M E N A I E K V K E gcatcggatattgtcacgctcactaacaacgattctggtgtgtcttatgttcttgagcgc A S D I V T L T N N D S G V S Y V L E R atttccacagattgtcttgatgagtga I S T D C L D E *
MYRVFVFDLDGTLLNDNLEISEKDRRNIEKLSRKCYVVFASGRMLVSTLNVEKKYFKRTFPTIAYNGAIVYLPEEGVILN EKIPPEVAKDIIEYIKPLNVHWQAYIDDVLYSEKDNEEIKSYARHSNVDYRVEPNLSELVSKMGTTKLLLIDTPERLDEL KEILSERFKDVVKVFKSFPTYLEIVPKNVDKGKALRFLRERMNWKKEEIVVFGDNENDLFMFEEAGLRVAMENAIEKVKE ASDIVTLTNNDSGVSYVLERISTDCLDE
This information was obtained using the Protein Parameters tool on the ExPASy Molecular Biology Server.
Number of amino acids: 268
Molecular weight: 31186.7
Theoretical pI: 5.04
Amino acid composition:
Ala (A) 11 4.1%
Arg (R) 15 5.6%
Asn (N) 17 6.3%
Asp (D) 19 7.1%
Cys (C) 2 0.7%
Gln (Q) 1 0.4%
Glu (E) 30 11.2%
Gly (G) 9 3.4%
His (H) 2 0.7%
Ile (I) 18 6.7%
Leu (L) 27 10.1%
Lys (K) 24 9.0%
Met (M) 6 2.2%
Phe (F) 12 4.5%
Pro (P) 9 3.4%
Ser (S) 15 5.6%
Thr (T) 11 4.1%
Trp (W) 2 0.7%
Tyr (Y) 12 4.5%
Val (V) 26 9.7%
Asx (B) 0 0.0%
Glx (Z) 0 0.0%
Xaa (X) 0 0.0%
Total number of negatively charged residues (Asp + Glu): 49
Total number of positively charged residues (Arg + Lys): 39
Atomic composition:
Carbon C 1404
Hydrogen H 2225
Nitrogen N 361
Oxygen O 423
Sulfur S 8
Formula: C1404H2225N361O423S8
Total number of atoms: 4421
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 28345 28127 27580 26860 25720
Abs 0.1% (=1 g/l) 0.909 0.902 0.884 0.861 0.825
276 278 279 280 282
nm nm nm nm nm
Ext. coefficient 28200 28000 27460 26740 25600
Abs 0.1% (=1 g/l) 0.904 0.898 0.881 0.857 0.821
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 34.87
This classifies the protein as stable.
Aliphatic index: 97.72
Grand average of hydropathicity (GRAVY): -0.353