|
|
Available sections:
| Target | log10(PSIBLAST E) | % identical | % coverage (of MP gene) | Latest Status |
|---|---|---|---|---|
| 1009B | -73.40 | 17.87 | 94.38 | In PDB (1STZ) |
| 1009B1 | -54.22 | 16.42 | 98.17 | Suggested work stop (58271 58271) |
ATGAAAAATTTAACTACCCGACAAGCCCAAATTCTCAAGGCCATCATCAACGAATATATTGCCTATCCAGTACCTGTTGG TAGTAAATTATTAACTAAAAAATATTTTAAAAACCTCTCTGGCGGTACACTCCGAAACGAAATGGCCGTTTTGGAAAAAG AGGGTTATCTCAAAAAGAACCACATCTCTTCAGGGCGAATCCCCTCCCAGTTGGGCTATCAGTACTATGTCAAGTTACTC ACTAAAAATGATGATAAGAGTAACCTTAAAACCCGCTTAAGGGCGATTATCTTGCAAAAACACAAAACAATTGATGAAAT TATTGAACTGGGGGTAAAGTTTATCAACGAAATGGTAAACCTACCAGTGGTGTTAACCCACTTTAGTAGTGATGAAGTCT TAAAAAAGATTGATCTCATTATGCTCGATCAGTCCTGTGCACTGCTACTGTTAGTGTCAGCTAGTGGTAACGTCTTTAAG AAAACGATTAGCTATGCTAACCAAAGACAGTTTGAAGACATCATGGTATGTGTCAGGATCTTTAATGATCGCATTATCGA TACACGTTTCTGTGATATTGCCCAACACTTAGATGTTTTAAAGGAAATTATTCGCAGCAAGGTACACGAGTACCAGTATG TCATTGACGAAATCCTGTTTAAGCTGTTTAACTTTGAGGAATTCCAACAAGCACGTAAGCAGGTTTATGGCATCCATTAC CTAGCCCAACAACCAGAGTTTGCCAACCAGGAAAGATTGACGCGTATCTTAAACTTACTGGAAGATACTAGTGTCTGACA ACAAATGGCCTTTATGAACCAAAACAACCAGACTACTAATATTACGTTTGGTGACAAGTTAGGATTAGAAGGGGAAGAGG TTTCGGTAGCTTCTACTCTTATTAATACCACCAACGAAAGTAAGCACCAACTAGCGATAGTGGGTCCCACCCGGATGGAC TACCAAAAGGTGAAAGCGTTATTGTTGACCCTCAAAGAAGAGATCGAGGAGTACGATAAGCAACTTCACGGTGGTAAAAC CACTAGCTCCACTTAA
(352 codons) fields: [triplet] [frequency: per thousand] ([number]) UUU34.1( 12) UCU8.5( 3) UAU25.6( 9) UGU8.5( 3) UUC5.7( 2) UCC8.5( 3) UAC14.2( 5) UGC0.0( 0) UUA42.6( 15) UCA5.7( 2) UAA2.8( 1) UGA2.8( 1) UUG17.0( 6) UCG2.8( 1) UAG0.0( 0) UGG0.0( 0) CUU8.5( 3) CCU2.8( 1) CAU2.8( 1) CGU8.5( 3) CUC22.7( 8) CCC5.7( 2) CAC19.9( 7) CGC8.5( 3) CUA11.4( 4) CCA8.5( 3) CAA42.6( 15) CGA8.5( 3) CUG17.0( 6) CCG0.0( 0) CAG22.7( 8) CGG2.8( 1) AUU45.5( 16) ACU25.6( 9) AAU14.2( 5) AGU19.9( 7) AUC36.9( 13) ACC22.7( 8) AAC45.5( 16) AGC8.5( 3) AUA2.8( 1) ACA8.5( 3) AAA45.5( 16) AGA5.7( 2) AUG22.7( 8) ACG8.5( 3) AAG42.6( 15) AGG5.7( 2) GUU14.2( 5) GCU8.5( 3) GAU34.1( 12) GGU22.7( 8) GUC17.0( 6) GCC22.7( 8) GAC11.4( 4) GGC8.5( 3) GUA17.0( 6) GCA5.7( 2) GAA48.3( 17) GGA2.8( 1) GUG14.2( 5) GCG8.5( 3) GAG22.7( 8) GGG8.5( 3)
Note: This was generated using the standard codon usage table; UGA codons in MP/MP genes will show up as terminators ("*")
atgaaaaatttaactacccgacaagcccaaattctcaaggccatcatcaacgaatatatt M K N L T T R Q A Q I L K A I I N E Y I gcctatccagtacctgttggtagtaaattattaactaaaaaatattttaaaaacctctct A Y P V P V G S K L L T K K Y F K N L S ggcggtacactccgaaacgaaatggccgttttggaaaaagagggttatctcaaaaagaac G G T L R N E M A V L E K E G Y L K K N cacatctcttcagggcgaatcccctcccagttgggctatcagtactatgtcaagttactc H I S S G R I P S Q L G Y Q Y Y V K L L actaaaaatgatgataagagtaaccttaaaacccgcttaagggcgattatcttgcaaaaa T K N D D K S N L K T R L R A I I L Q K cacaaaacaattgatgaaattattgaactgggggtaaagtttatcaacgaaatggtaaac H K T I D E I I E L G V K F I N E M V N ctaccagtggtgttaacccactttagtagtgatgaagtcttaaaaaagattgatctcatt L P V V L T H F S S D E V L K K I D L I atgctcgatcagtcctgtgcactgctactgttagtgtcagctagtggtaacgtctttaag M L D Q S C A L L L L V S A S G N V F K aaaacgattagctatgctaaccaaagacagtttgaagacatcatggtatgtgtcaggatc K T I S Y A N Q R Q F E D I M V C V R I tttaatgatcgcattatcgatacacgtttctgtgatattgcccaacacttagatgtttta F N D R I I D T R F C D I A Q H L D V L aaggaaattattcgcagcaaggtacacgagtaccagtatgtcattgacgaaatcctgttt K E I I R S K V H E Y Q Y V I D E I L F aagctgtttaactttgaggaattccaacaagcacgtaagcaggtttatggcatccattac K L F N F E E F Q Q A R K Q V Y G I H Y ctagcccaacaaccagagtttgccaaccaggaaagattgacgcgtatcttaaacttactg L A Q Q P E F A N Q E R L T R I L N L L gaagatactagtgtctgacaacaaatggcctttatgaaccaaaacaaccagactactaat E D T S V * Q Q M A F M N Q N N Q T T N attacgtttggtgacaagttaggattagaaggggaagaggtttcggtagcttctactctt I T F G D K L G L E G E E V S V A S T L attaataccaccaacgaaagtaagcaccaactagcgatagtgggtcccacccggatggac I N T T N E S K H Q L A I V G P T R M D taccaaaaggtgaaagcgttattgttgaccctcaaagaagagatcgaggagtacgataag Y Q K V K A L L L T L K E E I E E Y D K caacttcacggtggtaaaaccactagctccacttaa Q L H G G K T T S S T *
MKNLTTRQAQILKAIINEYIAYPVPVGSKLLTKKYFKNLSGGTLRNEMAVLEKEGYLKKNHISSGRIPSQLGYQYYVKLL TKNDDKSNLKTRLRAIILQKHKTIDEIIELGVKFINEMVNLPVVLTHFSSDEVLKKIDLIMLDQSCALLLLVSASGNVFK KTISYANQRQFEDIMVCVRIFNDRIIDTRFCDIAQHLDVLKEIIRSKVHEYQYVIDEILFKLFNFEEFQQARKQVYGIHY LAQQPEFANQERLTRILNLLEDTSVWQQMAFMNQNNQTTNITFGDKLGLEGEEVSVASTLINTTNESKHQLAIVGPTRMD YQKVKALLLTLKEEIEEYDKQLHGGKTTSST
This information was obtained using the Protein Parameters tool on the ExPASy Molecular Biology Server.
Number of amino acids: 351
Molecular weight: 40461.8
Theoretical pI: 8.68
Amino acid composition:
Ala (A) 16 4.6%
Arg (R) 14 4.0%
Asn (N) 21 6.0%
Asp (D) 16 4.6%
Cys (C) 3 0.9%
Gln (Q) 23 6.6%
Glu (E) 25 7.1%
Gly (G) 15 4.3%
His (H) 8 2.3%
Ile (I) 30 8.5%
Leu (L) 42 12.0%
Lys (K) 31 8.8%
Met (M) 8 2.3%
Phe (F) 14 4.0%
Pro (P) 6 1.7%
Ser (S) 19 5.4%
Thr (T) 23 6.6%
Trp (W) 1 0.3%
Tyr (Y) 14 4.0%
Val (V) 22 6.3%
Asx (B) 0 0.0%
Glx (Z) 0 0.0%
Xaa (X) 0 0.0%
Total number of negatively charged residues (Asp + Glu): 41
Total number of positively charged residues (Arg + Lys): 45
Atomic composition:
Carbon C 1817
Hydrogen H 2925
Nitrogen N 485
Oxygen O 534
Sulfur S 11
Formula: C1817H2925N485O534S11
Total number of atoms: 5772
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 25845 25327 24610 23730 22520
Abs 0.1% (=1 g/l) 0.639 0.626 0.608 0.586 0.557
276 278 279 280 282
nm nm nm nm nm
Ext. coefficient 25700 25200 24490 23610 22400
Abs 0.1% (=1 g/l) 0.635 0.623 0.605 0.584 0.554
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 34.90
This classifies the protein as stable.
Aliphatic index: 102.74
Grand average of hydropathicity (GRAVY): -0.272| Model | Percentage of MP Gene |
|---|---|
| Coiled Coil (CCP) | 6 |
| Disordered (SEG) | 0 |
| Transmembrane (PHDhtm) | 0 |
| Transmembrane (TMHMM) | 0 |
| Homologous to known structure (PSIBLAST) | 0 |
Sequence: Amino acid sequence.
CCP (C or -): coiled coil prediction from the ccp program (NCBI toolkit)
SEG (D or -): low complexity regions (possibly disordered) from SEG
PHDhtm (H or -): Transmembrane prediction from PHDhtm
TMHMM (H or -): Transmembrane prediction from TMHMM
PSIBLAST (3 or -): Regions potentially homologous to a protein of known 3D structure, according to PSIBLAST
Pred2ary (H, E, or -): Secondary structure prediction from Pred2ary
10 20 30 40 50 60 70 80
| | | | | | | |
Sequence MKNLTTRQAQILKAIINEYIAYPVPVGSKLLTKKYFKNLSGGTLRNEMAVLEKEGYLKKNHISSGRIPSQLGYQYYVKLL
CCP --------------------------------------------------------------------------------
SEG --------------------------------------------------------------------------------
PHDhtm --------------------------------------------------------------------------------
TMHMM --------------------------------------------------------------------------------
PSIBLAST --------------------------------------------------------------------------------
Pred2ary ----HHHHHHHHHHHHHHHHH------HHHHHHHH-----HHHHHHHHHHHHH-----------------HHHHHHHHHH
90 100 110 120 130 140 150 160
| | | | | | | |
Sequence TKNDDKSNLKTRLRAIILQKHKTIDEIIELGVKFINEMVNLPVVLTHFSSDEVLKKIDLIMLDQSCALLLLVSASGNVFK
CCP --------------------------------------------------------------------------------
SEG --------------------------------------------------------------------------------
PHDhtm --------------------------------------------------------------------------------
TMHMM --------------------------------------------------------------------------------
PSIBLAST --------------------------------------------------------------------------------
Pred2ary H-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---EEEEE--------EEEEEEE-----EEEEEEE----EEE
170 180 190 200 210 220 230 240
| | | | | | | |
Sequence KTISYANQRQFEDIMVCVRIFNDRIIDTRFCDIAQHLDVLKEIIRSKVHEYQYVIDEILFKLFNFEEFQQARKQVYGIHY
CCP --------------------------------------------------------------------------------
SEG --------------------------------------------------------------------------------
PHDhtm --------------------------------------------------------------------------------
TMHMM --------------------------------------------------------------------------------
PSIBLAST --------------------------------------------------------------------------------
Pred2ary EEEE------HHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------EEE-----
250 260 270 280 290 300 310 320
| | | | | | | |
Sequence LAQQPEFANQERLTRILNLLEDTSVWQQMAFMNQNNQTTNITFGDKLGLEGEEVSVASTLINTTNESKHQLAIVGPTRMD
CCP --------------------------------------------------------------------------------
SEG --------------------------------------------------------------------------------
PHDhtm --------------------------------------------------------------------------------
TMHMM --------------------------------------------------------------------------------
PSIBLAST --------------------------------------------------------------------------------
Pred2ary ---------HHHHHHHHHHHHHHHHHHHHHHH------EEEEEE----------EEEEEEE------EEEEEEE------
330 340 350
| | |
Sequence YQKVKALLLTLKEEIEEYDKQLHGGKTTSST
CCP CCCCCCCCCCCCCCCCCCCCCC---------
SEG -------------------------------
PHDhtm -------------------------------
TMHMM -------------------------------
PSIBLAST -------------------------------
Pred2ary HHHHHHHHHHHHHHHHHHHHHH---------