Difference between revisions of "Homology modeling fallback data"
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==Target sequence== | ==Target sequence== | ||
| − | > | + | This is just one of the reference species' sequences - I chose <code>Mbp1_SCHPO</code> because it is the most distantly related to ''saccharomyces cerevisiae''. |
| − | + | ||
| − | + | >MBP1_SCHPO NP_593032 23..96 | |
| + | IKGVSVMRRRRDSWLNATQILKVADFDKPQRTRVLERQVQIGAHEKVQGGYGKYQGTWVPFQRGVDLATK | ||
| + | YKV | ||
| + | |||
==FASTA formatted target-template alignment== | ==FASTA formatted target-template alignment== | ||
| − | + | This uses the 1MB1 PDB file as template, the sequence was extracted from coordinates using the WhatIf server. | |
| − | + | ||
| − | + | >1MB1_A 3..100 | |
| − | > | + | NQIYSARYSGVDVYEFIHSTGSIMKRKKDDWVNATHILKAANFAKAKRTRILEKEVLKET |
| − | --------------------- | + | HEKVQGGFGKYQGTWVPLNIAKQLAEKFSVYDQLKPLF |
| − | + | >MBP1_SCHPO NP_593032 23..96 | |
| + | ----------------IKGV-SVMRRRRDSWLNATQILKVADFDKPQRTRVLERQVQIGA | ||
| + | HEKVQGGYGKYQGTWVPFQRGVDLATK----------- | ||
| + | |||
==SwissModel response== | ==SwissModel response== | ||
Revision as of 02:42, 30 November 2011
Please remember: if you use information from this page as a fallback for technical problems with the assignment, you must document this in your submission. State what you tried, what didn't work and only then use the data from here.
Contents
Target sequence
This is just one of the reference species' sequences - I chose Mbp1_SCHPO because it is the most distantly related to saccharomyces cerevisiae.
>MBP1_SCHPO NP_593032 23..96 IKGVSVMRRRRDSWLNATQILKVADFDKPQRTRVLERQVQIGAHEKVQGGYGKYQGTWVPFQRGVDLATK YKV
FASTA formatted target-template alignment
This uses the 1MB1 PDB file as template, the sequence was extracted from coordinates using the WhatIf server.
>1MB1_A 3..100 NQIYSARYSGVDVYEFIHSTGSIMKRKKDDWVNATHILKAANFAKAKRTRILEKEVLKET HEKVQGGFGKYQGTWVPLNIAKQLAEKFSVYDQLKPLF >MBP1_SCHPO NP_593032 23..96 ----------------IKGV-SVMRRRRDSWLNATQILKVADFDKPQRTRVLERQVQIGA HEKVQGGYGKYQGTWVPFQRGVDLATK-----------
SwissModel response
Explanation of the output is found in the SwissModel Help page.
Graphical comparison of template and target sequence to emphasize which regions have been modelled.
Icon of the model
The target-template alignment:
TARGET 1 HVMRRRE DNWINATHIL KAAGFDKPAR
1mb1_ 3 nqiysarysg vdvyefihst g--simkrkk ddwvnathil kaanfakakr
TARGET ssshhhh hh hhhh
1mb1_ sssssss ssssssss s ssssss ssshhhh hh hhhh
TARGET 28 TRILERDVQK DVHEKIQGGY GKYQGTWIPL EQGRALAQRN NIYDRLRPIF
1mb1_ 51 trilekevlk ethekvqggf gkyqgtwvpl niakqlaekf svydqlkplf
TARGET hhhhhhhhh sss ssss h hhhhhhhhh hh hhh
1mb1_ hhhhh sss ssss h hhhhhhhhh hh hh
TARGET
1mb1_ -
Anolea non-local-environment graphical output
Gromos forcefield graphical output
Verify3D 3D-profile output
