Hi,
I got this error message while running modeller:
fit2xyz_E> number of equivalent positions < 3: 0 recover__> MODELLER_STATUS >= STOP_ON_ERROR: 1 1
THE .TOP FILE IS:
# Very fast homology modelling by the MODELLER TOP routine 'model'. INCLUDE # Include the predefined TOP routines SET ALNFILE = 'motilin_giulio4.align' # alignment filename SET KNOWNS = '1f88' '2EIA' # codes of the templates SET SEQUENCE = '1mot' # code of the target SET ATOM_FILES_DIRECTORY = '/lab/giulio/KOSAN/motilin/homology' SET STARTING_MODEL = 1 SET ENDING_MODEL = 1 CALL ROUTINE = 'model' # do homology modelling
THE ALIGNMENT IS:
>P1;1mot sequence:1mot: 1: : 412: :6a684b4cd3365f9a226ebadbae3b60b3MGSPKTMG 6-386::-1.00:-1.00 MGSPWNGSDGPEGAREPP---WPALPPCDERRCSPFPLGALVPVTAVCLCLFVVGVSGNVVTVMLIGRYRDMRTT TNLYLGSMAVSDLLILLGLPFDLYRLWRSRPWVFGPLLCRLSLYVGEGCTYATLLHMTALSVERYLAICRPLRAR VLVTRRRVRALIAVLWAVALLSAGPFLFL----------------------------VGVEQDPGISVVPGLNGT ARIASSPLASSPPLWLSRAPPP-----SPPSGPETAEAAALFSRECRPSPAQLGALRVMLWVTTAYFFLPFLCLS ILYGLIGRELWSSRRPLRGPAASGRERGHRQTVRVLLVVVLAFIICWLPFHVGRIIYINTEDSRMMYFSQYFNIV ALQLFYLSASINPILYNLISKKYRAAAFKLLLARKSRPRGFHRSRDTAGEVAGDTGGDTVGYTETSANVKTMG* >P1;1f88 structureX:1f88: 1:A: 328:A:1-332::-1.00:-1.00 ----MNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIMLGFPINFLTLYVTVQHKKLRTP LNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSN- FRFGENHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNES------------------ ---------------------------------------------------------FVIYMFVVHFIIPLIVIF FCYGQLVFTVKEAAA----SATT--QKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQG---SDFGPIFMTI PAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNP-------------------STTVSKTETSQVAPA--* >P1;2EIA structureX:2EIA: 52:A: 99:A:unknown:unknown:-1:-1 --------------------------------------------------------------------------- --------------------------------------------------------------------------- ------------------------------------------------------------EMNAFLDVVPGQAGQ KQILLDAIDKIADDWDNRHPLPNAPLVAPPQGP------------------------------------------ --------------------------------------------------------------------------- -------------------------------------------------------------------------*
What does the error mean? The alignment seems to be ok...
Thank you very much for your help
Giulio Rastelli