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UNIVERSIDAD NACIONAL DE COLOMBIA
INSTITUTO DE BIOTECNOLOGIA
GRUPO DE BIOINFORMÁTICA
POSGRADO INTERFACULTADES EN MICROBIOLOGÍA

Introducción a la bioinformática
Segundo  parcial
Diciembre 18 de 2002

Nombres y Apellidos: 



Nota : todas sus respuestas deben estar en un archivo cuyo nombre debe ser su login, el cual debe ser enviado a la siguiente dirección : ebarreto@ibun.unal.edu.co.  Buena suerte.
  1. Con relación al alineamiento pareado cuales son la principales diferencias entre un alineamiento global y uno local y en casos usted recomendaría utilizar cada uno de ellos?
  2. Las figuras de abajo son dotplots obtenidos con 2 proteínas hipotéticas "1" and "2". La figura A representa la proteína "1" comparada contra ella misma, La figura B representa la proteína "2" comparada contra ella misma, y la figura C representa la proteína "1" alineada con la proteína "2".

    • Porque usted obtiene una diagonal larga en la figuras  A y B? (2 pts)
    • En las mismas figuras, que representan las diagonales pequeñas? (2 pts)
    • Trate de deducir los posibles dominios presentes en estas dos proteínas usando las 3 figuras (A,B,C) y haga una representación esquemática de ellos. (6 pts)
       

  3. Usted esta tratando de hacer ensamblaje de secuencias a partir de ESTs. Cual es el objetivo de hacer esto, que información puede proporcionar y cuales son los pasos indicando el tipo de herramientas de bioinformática que se utilizan en cada uno de ellos?(10 pts).
     
  4. Debajo encontrará la salida de una búsqueda BLAST usando SwissProt y TrEMBL como bases de datos. Este resultado fue obtenido usando  el programa blastp (protein query vs protein database) y la proteína UFD1_YEAST como query.
    • Que representan las "X" en la secuencia query? (vea el primer alineamiento) (2 pts)
    • De manera general, como se calcula el "score" de una alineamiento pareado? (3 pts)
    • Cuantas proteínas en SwissProt tienen un "score" que pueda ser considerado como significativo en esta búsqueda? (2 pts)
    • Cual es la primera proteína con un "score" que pueda ser considerado como significativo? (1 pt)
    • Cual es la matriz de peso utilizada para esta búsqueda y porque?Si pudiera escoger la matriz cual seleccionaria y porque?(2 pt)

 

BLAST2.0 query receipt

 

 

Thanks. Your request has been filed with the following data:
 

 

Program:
blastp
Database:      swisstrembl
Number:         4979
e-mail:

Format:         SwissProt_ID
Sequence:       ufd1_yeast 



Processing, please wait... blastall.remote -s blast.cscs.ch -p blastp -d swisstrembl wwwtmp/sq.4979.txt -M blosum62

-K 0 -e 10.0 -F T -G def -E def -X def -v 50 -b 50 -g T |

Here are your search results: SIB BLAST network server version 1.3 of November 15, 2000 Welcome to the SIB BLAST Network Service (julier) ============================================================================== Swiss Institute of Bioinformatics (SIB) Ludwig Institute for Cancer Research (LICR) Swiss Institute for Experimental Cancer Research (ISREC) ============================================================================== If results of this search are reported or published, please mention that the computation was performed at the SIB using the BLAST network service. PEPTIDE SEQUENCE DATABASES swiss SwissProt + updates 26-Jan-2001 swisstrembl SwissProt+Trembl+TrUpdates 26-Jan-2001 nr Non-redundant SP+Trembl+TrUpdates+gp+gpu 26-Jan-2001 gpupdate cumulative weekly updates of gp, currently 26-Jan-2001 shuffled SwissProt r30 shuffled in windows of 20 aa yeast S.cerevisiae translated genome ORFs NUCLEOTIDE SEQUENCE DATABASES embre * EMBL Data Library, Release 65, December 2000 embu * EmblUpdate 31-Jan-2001 embl * EMBL+EmblUpdate 31-Jan-2001 EST Database of Expressed Sequence Tags 31-Jan-2001 GSS Genome Survey Sequences 31-Jan-2001 STS Database of Sequence Tagged Sites 31-Jan-2001 nr * Non-redundant EMBL+EmblUpdate+GenBank 31-Jan-2001 repbase + Repbase, February 1996 simple Simple sequence repeats (J. Mol. Evol. 40:120, 1995) yeast S.cerevisiae genome worm C.elegans genome * The est, gss, and sts divisions of EMBL are excluded from these databases. + Contains sequences from the files humrep.ref, invrep.ref, mamrep.ref, plnrep.ref, rodrep.ref, and vertrep.ref from repbase. ============================================================================ T he BLAST Network Service uses a server developed at SIB and the NCBI BLAST 2 software. For problems regarding this site, please contact one of the following persons: - problems with the programs: Christian Iseli (chris@cmpteam4.unil.ch) - problems with the databases: Victor Jongeneel (Victor.Jongeneel@isb-sib.ch) ============================================================================ BL ASTP 2.1.2 [Oct-19-2000] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Query= sp|P53044|UFD1_YEAST (UFD1..)UBIQUITIN FUSION DEGR (361 letters) Database: swiss_nr; swiss_varsplic_nr; trembl_new_nr; trembl_nr; trembl_varsplic_nr 500,285 sequences; 166,584,592 total letters Searching..................................................done

Score E Sequences producing significant alignments: (bits) Value sp|P53044|UFD1_YEAST (UFD1..)UBIQUITIN FUSION DEGRADATION PROTE... 655 0.0 tr|AJ005825|O42915 (UFD1..)UBIQUITIN FUSION DEGRADATION PROTEIN... 264 1e-69 tn|AF234601|AAG27535 UFD1.[Rattus norvegicus] 204 1e-51 sp_vs|Q92890-01|Q92890 SHORT ISOFORM OF Q92890[Homo sapiens] 203 2e-51 sp|P70362|UFD1_MOUSE (UFD1L)UBIQUITIN FUSION DEGRADATION PROTEI... 201 9e-51 tn|AF233524|AAG25922 Ubiquitin fusion degradation 1-like protei... 200 2e-50 sp|Q9VTF9|UFD1_DROME (CG6233)UBIQUITIN FUSION DEGRADATION PROTE... 196 4e-49 tr|AC006841|Q9SJV0 (AT2G21270)PUTATIVE UBIQUITIN FUSION-DEGRADA... 192 3e-48 tr|AL035679|Q9SVK0 (F19H22.30..)PUTATIVE UBIQUITIN-DEPENDENT PR... 190 2e-47 sp|Q92890|UFD1_HUMAN (UFD1L)UBIQUITIN FUSION DEGRADATION PROTEI... 185 4e-46 sp|Q19584|UFD1_CAEEL (F19B6.2)UBIQUITIN FUSION DEGRADATION PROT... 170 2e-41 tr|AC005315|O81075 (T9I4.15)PUTATIVE UBIQUITIN.[Arabidopsis tha... 169 3e-41 tr|Z69635|Q9U3I6 (F19B6.2B)F19B6.2B PROTEIN.[Caenorhabditis ele... 169 3e-41 tr|AF083031|Q9SEV9 (UFD1)UBIQUITIN FUSION DEGRADATION PROTEIN.[... 106 4e-22 tr|Z97338|O23395 (AT4G15420)SIMILAR TO UFD1 PROTEIN (UFD1 LIKE ... 102 6e-21 tn|AF315735|AAG31651 PRLI-interacting factor K (Fragment).[Arab... 102 6e-21 tr|AE001179|O51745 (BB0805)POLYRIBONUCLEOTIDE NUCLEOTIDYLTRANSF... 35 1.4 tr|AC010793|Q9MA08 F20B17.10.[Arabidopsis thaliana] 34 3.2 tr|AC010924|Q9S9M2 (T24D18.23)T24D18.23 PROTEIN.[Arabidopsis th... 34 3.2 tr|Z97182|O07779 (RV0599C..)HYPOTHETICAL 8.2 KDA PROTEIN.[Mycob... 34 3.2 tr|AC013289|Q9SFH8 (T6C23.7)HYPOTHETICAL 88.6 KDA PROTEIN.[Arab... 33 4.1 tr|AC010924|Q9S9M6 (T24D18.19)T24D18.19 PROTEIN.[Arabidopsis th... 33 5.4 tr|AC010924|Q9S9M4 (T24D18.21)T24D18.21 PROTEIN.[Arabidopsis th... 32 7.1 tr|AF020904|O16859 (MAFP3E)AGGREGATION FACTOR PROTEIN 3, FORM E... 32 9.3 tr|AB037819|Q9P2E9 (KIAA1398)KIAA1398 PROTEIN (FRAGMENT).[Homo ... 32 9.3 tr|AE004191|Q9KSZ6 (VC1110)SERYL-TRNA SYNTHETASE.[Vibrio cholerae] 32 9.3 tn|AL132765|CAC10588 (RRBP1)BA462D18.3.2 (ribosome binding prot... 32 9.3 >sp|P53044|UFD1_YEAST (UFD1..)UBIQUITIN FUSION DEGRADATION PROTEIN 1 (UB FUSION PROTEIN 1) (POLYMERASE-INTERACTING PROTEIN 3).[Saccharomyces cerevisiae] Length = 361 Score = 655 bits (1672), Expect = 0.0 Identities = 329/347 (94%), Positives = 329/347 (94%) Query: 15 VNMPQTFEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTAN 74 VNMPQTFEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTAN Sbjct: 15 VNMPQTFEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTAN 74 Query: 75 ETGRVTHGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDF 134 ETGRVTHGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDF Sbjct: 75 ETGRVTHGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDF 134 Query: 135 LDISDPKAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVT 194 LDISDPKAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVT Sbjct: 135 LDISDPKAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVT 194 Query: 195 DFAPPVGYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLGQGSMSTRIDYAGIANSSRNK 254 DFAPPVGYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLGQGSMSTRIDYAGIANSSRNK Sbjct: 195 DFAPPVGYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLGQGSMSTRIDYAGIANSSRNK 254 Query: 255 LSKFVGQGQNISGKAPKAEPKQDIKDMKITFDGEPAKLDLPEGQLFFGFPMVLPKEDEES 314 LSKFVGQGQNISGKAPKAEPKQDIKDMKITFDGEPAKLDLPEGQLFFGFPMVLPKEDEES Sbjct: 255 LSKFVGQGQNISGKAPKAEPKQDIKDMKITFDGEPAKLDLPEGQLFFGFPMVLPKEDEES 314 Query: 315 AAGSKSSEQNFQGQGISLRKSNXXXXXXXXXXXXXXXXXXPEVIEID 361 AAGSKSSEQNFQGQGISLRKSN PEVIEID Sbjct: 315 AAGSKSSEQNFQGQGISLRKSNKRKTKSDHDSSKSKAPKSPEVIEID 361 >tr|AJ005825|O42915 (UFD1..)UBIQUITIN FUSION DEGRADATION PROTEIN 1 (UB FUSION PROTEIN 1).[Schizosaccharomyces pombe] Length = 342 Score = 264 bits (667), Expect = 1e-69 Identities = 145/320 (45%), Positives = 197/320 (61%), Gaps = 24/320 (7%) Query: 16 NMPQTFEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANE 75 N+ Q F+ +RCYP+AM+ R + N+GGK+ LPPSAL KLS LN+ YPMLF Sbjct: 27 NVNQRFDTRYRCYPVAMIPGEERPN-VNYGGKVILPPSALEKLSRLNVSYPMLFDFENEA 85 Query: 76 TGRVTHGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFL 135 + THGGVLEFIAEEGRVYLP WMM TL ++PG L+++ +TD+ G +VKL+PQSV+FL Sbjct: 86 AEKKTHGGVLEFIAEEGRVYLPYWMMTTLSLEPGDLVRVINTDIAQGSYVKLQPQSVNFL 145 Query: 136 DISDPKAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTD 195 DI+D +AVLEN LRNFSTLT D+ EI YN + ++IK+++V+P+ S + V+ETDLV D Sbjct: 146 DITDHRAVLENALRNFSTLTKSDIFEILYNDQVYQIKVIDVQPDDSRHVVSVVETDLVVD 205 Query: 196 FAPPVGYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLGQGSMSTRIDYAGIANSSRNKL 255 F PP+GY E + Q +++N G QG+M T+I Y + + L Sbjct: 206 FDPPIGYEE-------SLQKNKQQNIAGV----------QGTMVTKIGYDELVRQGDSNL 248 Query: 256 SKFVGQGQNISGKAPKAEPKQDIKDMKITFDGEPAKLDLPEGQLFFGFPMVLPKEDEESA 315 K G G ++GK PK ++ D + PA L LP G FFG+P P +E+S Sbjct: 249 MK--GTGTKLNGKEVAEVPKINLLD--VEKQECPAPLILPLGTYFFGYPYKAPSIEEDSK 304 Query: 316 AGSKSSEQNFQGQGISLRKS 335 + F+G G SLR S Sbjct: 305 KDPNLFK--FEGAGTSLRAS 322 >tn|AF234601|AAG27535 UFD1.[Rattus norvegicus] Length = 307 Score = 204 bits (514), Expect = 1e-51 Identities = 128/320 (40%), Positives = 179/320 (55%), Gaps = 42/320 (13%) Query: 21 FEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGRVT 80 F +RC+ ++M+ + D GGKI +PPSAL +LS LNI YPMLFKLT + R+T Sbjct: 19 FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78 Query: 81 HGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISDP 140 H GVLEF+A+EG YLP WMM+ L ++ G L+Q+ S ++ + + K +PQS DFLDI++P Sbjct: 79 HCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNP 138 Query: 141 KAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAPPV 200 KAVLEN LRNF+ LT DVI I+YN K ++++++E KP+ K++ +IE D+ DF P+ Sbjct: 139 KAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPD---KAVSIIECDMNVDFDAPL 195 Query: 201 GYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLGQGSMSTRIDYAGIANSSRNKLSKFVG 260 GY EP+ + Q +E S+ D++G A F G Sbjct: 196 GYKEPE----RPVQHEE-------------------SIEGEADHSGYAGEV--GFRAFSG 230 Query: 261 QGQNISGKAPKAEPK-QDIK--DMKITFDGEPAKLDLPEGQLFF---GFPMVLPKEDEES 314 G + GK EP IK D+K KL G++ F PMV K+ EE Sbjct: 231 SGNRLDGKKKGVEPSPSPIKPGDIKRGIPNYEFKL----GKITFIRNSRPMV--KKVEED 284 Query: 315 AAGSKSSEQNFQGQGISLRK 334 AG + F G+G SLRK Sbjct: 285 EAGGRFVA--FSGEGQSLRK 302 >sp_vs|Q92890-01|Q92890 SHORT ISOFORM OF Q92890[Homo sapiens] Length = 307 Score = 203 bits (512), Expect = 2e-51 Identities = 122/320 (38%), Positives = 178/320 (55%), Gaps = 42/320 (13%) Query: 21 FEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGRVT 80 F +RC+ ++M+ + D GGKI +PPSAL +LS LNI YPMLFKLT + R+T Sbjct: 19 FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78 Query: 81 HGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISDP 140 H GVLEF+A+EG YLP WMM+ L ++ G L+Q+ S ++ + + K +PQS DFLDI++P Sbjct: 79 HCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNP 138 Query: 141 KAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAPPV 200 KAVLEN LRNF+ LT DVI I+YN K ++++++E KP+ K++ +IE D+ DF P+ Sbjct: 139 KAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPD---KAVSIIECDMNVDFDAPL 195 Query: 201 GYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLGQGSMSTRIDYAGIANSSRNKLSKFVG 260 GY EP+ +Q + ++++ G+ D++G A F G Sbjct: 196 GYKEPE------RQVQHEESTEGEA-----------------DHSGYAGEL--GFRAFSG 230 Query: 261 QGQNISGKAPKAEPKQ------DIKDMKITFDGEPAKLDLPEGQLFFGFPMVLPKEDEES 314 G + GK EP DIK ++ + K+ F L K+ EE Sbjct: 231 SGNRLDGKKKGVEPSPSPIKPGDIKRGIPNYEFKLGKI------TFIRNSRPLVKKVEED 284 Query: 315 AAGSKSSEQNFQGQGISLRK 334 AG + F G+G SLRK Sbjct: 285 EAGGRFVA--FSGEGQSLRK 302 >sp|P70362|UFD1_MOUSE (UFD1L)UBIQUITIN FUSION DEGRADATION PROTEIN 1 HOMOLOG (UB FUSION PROTEIN 1).[Mus musculus] Length = 307 Score = 201 bits (506), Expect = 9e-51 Identities = 122/320 (38%), Positives = 174/320 (54%), Gaps = 42/320 (13%) Query: 21 FEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGRVT 80 F +RC+ ++M+ + D GGKI +PPSAL +LS LNI YPMLFKLT + R+T Sbjct: 19 FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78 Query: 81 HGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISDP 140 H GVLEF+A+EG YLP WMM+ L ++ G L+Q+ S ++ + + K +PQS DFLDI++P Sbjct: 79 HCGVLEFVADEGICYLPHWMMQNLLLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNP 138 Query: 141 KAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAPPV 200 KAVLEN LRNF+ +T DVI I+YN K ++++++E KP+ K++ +IE D+ DF P+ Sbjct: 139 KAVLENALRNFACMTTGDVIAINYNEKIYELRVMETKPD---KAVSIIECDMNVDFDAPL 195 Query: 201 GYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLGQGSMSTRIDYAGIANSSRNKLSKFVG 260 GY EP + Q +E S+ D++G A F G Sbjct: 196 GYKEPK----RPVQHEE-------------------SIEGEADHSGYAGEV--GFRAFSG 230 Query: 261 QGQNISGKAPKAEPKQ------DIKDMKITFDGEPAKLDLPEGQLFFGFPMVLPKEDEES 314 G + GK EP DIK ++ + K+ F L K+ EE Sbjct: 231 SGNRLDGKKKGVEPSPSPIKPGDIKRGIPNYEFKLGKI------TFIRNSRPLVKKVEED 284 Query: 315 AAGSKSSEQNFQGQGISLRK 334 AG + F G+G SLRK Sbjct: 285 EAGGRFVA--FSGEGQSLRK 302 >tn|AF233524|AAG25922 Ubiquitin fusion degradation 1-like protein (Fragment).[Xenopus laevis] Length = 305 Score = 200 bits (504), Expect = 2e-50 Identities = 116/286 (40%), Positives = 160/286 (55%), Gaps = 18/286 (6%) Query: 21 FEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGRVT 80 F +RCY ++M+ + D GGKI +PPSAL +LS LNI YPMLFKLT + R+T Sbjct: 19 FSTQYRCYSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78 Query: 81 HGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISDP 140 H GVLEF+A+EG YLP WMM+ L ++ LLQ+ S ++ + + K +PQS DFLDI++P Sbjct: 79 HCGVLEFVADEGVCYLPHWMMQNLLLEEEGLLQVESVNLQVATYSKFQPQSPDFLDITNP 138 Query: 141 KAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAPPV 200 KAVLEN LRNF+ LT DVI I+YN K ++++++E KP+ K++ +IE D+ DF P+ Sbjct: 139 KAVLENALRNFACLTTGDVIAINYNEKIYELRVMETKPD---KAVSIIECDMNVDFDAPL 195 Query: 201 GYVEPDYKALKAQQ------------DKEKKNSFGKGQVLDPSVLGQGSMSTRIDYAGIA 248 GY EPD + +Q D + G G LD G G + + GI Sbjct: 196 GYKEPDRHTQQEEQTEIEPDHSEYAADLGFRAFSGSGNRLDGKKKGIGPSPSPLKPEGIR 255 Query: 249 NSSRNKLSKFVGQGQNISGKAP--KAEPKQDIKDMKITFDGEPAKL 292 N K +G I P K + D + I F GE L Sbjct: 256 RGIPNYDFK-IGTITFIRNSRPQTKKVEEDDTANQFIAFSGEGQSL 300 >sp|Q9VTF9|UFD1_DROME (CG6233)UBIQUITIN FUSION DEGRADATION PROTEIN 1 HOMOLOG (UB FUSION PROTEIN 1).[Drosophila melanogaster] Length = 316 Score = 196 bits (492), Expect = 4e-49 Identities = 120/324 (37%), Positives = 176/324 (54%), Gaps = 31/324 (9%) Query: 19 QTFEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGR 78 + F ++C+ ++M+ R D GGKI +PPSAL L+ LN+ YPMLFKLT + R Sbjct: 15 RNFHANYKCFSVSMLPGNERTD-VEKGGKIIMPPSALDTLTRLNVEYPMLFKLTNVKKSR 73 Query: 79 VTHGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDIS 138 +H GVLEF+A+EG+ YLP WMME L + G +L I S +P+ F K +P S DFLDI+ Sbjct: 74 SSHAGVLEFVADEGKCYLPHWMMENLLLGEGDILNIESVSLPVATFSKFQPHSTDFLDIT 133 Query: 139 DPKAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAP 198 +PKAVLEN LRNF+ LT DVI I YN K +++ +LE KP ++ +IE D+ +F Sbjct: 134 NPKAVLENALRNFACLTRGDVIAIKYNKKVYELCVLETKP---GNAVSIIECDMNVEFEA 190 Query: 199 PVGYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLGQGSMST-RIDYAGIANSSRNK-LS 256 PVGY +D + + G GQ QG+ T + AG N+ + + Sbjct: 191 PVGY-----------KDHSETQASGSGQ--------QGAAGTVGGEIAGATNAILEEVVE 231 Query: 257 KFVGQGQNISGKAPKAEPKQDIKDMKITFDGEPAKLDLPEGQLFFG---FPMVLPKEDEE 313 F G G + GK K + K+ G P D G + F P+ ++++ Sbjct: 232 TFKGSGVRLDGKKKKESQLETPVVKKVLARGVP-DYDFQFGLIRFDRNIRPISDRSQEDD 290 Query: 314 SAAGS--KSSEQNFQGQGISLRKS 335 + AG+ S ++F G G S++K+ Sbjct: 291 AVAGNADASDAESFHGTGFSMKKT 314 >tr|AC006841|Q9SJV0 (AT2G21270)PUTATIVE UBIQUITIN FUSION-DEGRADATION PROTEIN.[Arabidopsis thaliana] Length = 320 Score = 192 bits (484), Expect = 3e-48 Identities = 124/310 (40%), Positives = 173/310 (55%), Gaps = 36/310 (11%) Query: 20 TFEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGRV 79 TFE+ +RCYP + ++ K G KI +PPSAL +L+ L+I YPMLF+L RV Sbjct: 13 TFEQSYRCYPASFID----KPQLESGDKIIMPPSALDRLASLHIDYPMLFELRNAGIERV 68 Query: 80 THGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISD 139 TH GVLEFIAEEG +Y+P WMM+ L +Q G ++++ + +P G +VKL+P + DFLDIS+ Sbjct: 69 THCGVLEFIAEEGMIYMPYWMMQNLLLQEGDIVRVRNVTLPKGTYVKLQPHTTDFLDISN 128 Query: 140 PKAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAPP 199 PKA+LE LRN+S LT D I + YN K + I I+E KP + +I +IETD DFAPP Sbjct: 129 PKAILETALRNYSCLTSGDSIMVPYNNKKYFIDIVETKP---ANAISIIETDCEVDFAPP 185 Query: 200 VGYVEPD-----------YKALKAQQDKEKK-NSF-GKGQVLD---------PSVLGQGS 237 + Y EP+ KA + + E K N F G G+ LD P+ +G Sbjct: 186 LDYKEPERPTAPSAAKGPAKAEEVVDEPEPKFNPFTGSGRRLDGRPLAYEPAPASSSKGK 245 Query: 238 MSTRIDYAGIANSSRNKLSKFVGQGQNISG----KAPK-AEPKQDIKDMKITFDGEPAKL 292 + G ++ + + QG+ + G +APK A PK + K T E K Sbjct: 246 QPVVANGNGQSSVASSSEKATRAQGKLVFGANGNRAPKEAAPK--VGAAKETKKEEQEKK 303 Query: 293 DLPEGQLFFG 302 D P+ Q F G Sbjct: 304 DEPKFQAFSG 313 >tr|AL035679|Q9SVK0 (F19H22.30..)PUTATIVE UBIQUITIN-DEPENDENT PROTEOLYTIC PROTEIN.[Arabidopsis thaliana] Length = 315 Score = 190 bits (478), Expect = 2e-47 Identities = 104/256 (40%), Positives = 145/256 (56%), Gaps = 30/256 (11%) Query: 20 TFEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGRV 79 TFE+ +RCYP + ++ K G KI +PPSAL +L+ L I YPMLF+L T Sbjct: 12 TFEQTYRCYPSSFID----KPQIESGDKIIMPPSALDRLASLQIDYPMLFELRNASTDSF 67 Query: 80 THGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISD 139 +H GVLEFIAEEG +Y+P WMM+ L +Q G ++++ + +P G +VKL+P + DFLDI++ Sbjct: 68 SHCGVLEFIAEEGVIYIPYWMMQNLLLQEGDMVRVRNVTLPKGTYVKLQPHTTDFLDIAN 127 Query: 140 PKAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAPP 199 PKA+LE LRN+S LTV D I + YN K + I I+E KP S I +IETD DFAPP Sbjct: 128 PKAILETALRNYSCLTVGDSIMVPYNNKKYFIDIVEAKP---SNGISIIETDCEVDFAPP 184 Query: 200 VGYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLGQGSMSTRIDYAGIANSSRNKLSKFV 259 + Y EP+ A E K + +D A + K + F Sbjct: 185 LDYKEPERPVAPAPAKGEAK-------------------AKEVDVA----EAEPKFNPFT 221 Query: 260 GQGQNISGKAPKAEPK 275 G G+ + G+ EP+ Sbjct: 222 GSGRRLDGRPLSYEPQ 237 >sp|Q92890|UFD1_HUMAN (UFD1L)UBIQUITIN FUSION DEGRADATION PROTEIN 1 HOMOLOG (UB FUSION PROTEIN 1).[Homo sapiens] Length = 343 Score = 185 bits (466), Expect = 4e-46 Identities = 124/356 (34%), Positives = 179/356 (49%), Gaps = 78/356 (21%) Query: 21 FEEFFRCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGRVT 80 F +RC+ ++M+ + D GGKI +PPSAL +LS LNI YPMLFKLT + R+T Sbjct: 19 FSTQYRCFSVSMLAGPNDRSDVEKGGKIIMPPSALDQLSRLNITYPMLFKLTNKNSDRMT 78 Query: 81 HGGVLEFIAEEGRVYLPQWMM-------------ETLGIQ-------------------- 107 H GVLEF+A+EG YLP WMM ET+ +Q Sbjct: 79 HCGVLEFVADEGICYLPHWMMQNLLLEEDGLVQLETVNLQVATYSKSKFCYLPHWMMQNL 138 Query: 108 ---PGSLLQISSTDVPLGQFVKLEPQSVDFLDISDPKAVLENVLRNFSTLTVDDVIEISY 164 G L+Q+ S ++ + + K +PQS DFLDI++PKAVLEN LRNF+ LT DVI I+Y Sbjct: 139 LLEEGGLVQVESVNLQVATYSKFQPQSPDFLDITNPKAVLENALRNFACLTTGDVIAINY 198 Query: 165 NGKTFKIKILEVKPESSSKSICVIETDLVTDFAPPVGYVEPDYKALKAQQDKEKKNSFGK 224 N K ++++++E KP+ K++ +IE D+ DF P+GY EP+ +Q + ++++ G+ Sbjct: 199 NEKIYELRVMETKPD---KAVSIIECDMNVDFDAPLGYKEPE------RQVQHEESTEGE 249 Query: 225 GQVLDPSVLGQGSMSTRIDYAGIANSSRNKLSKFVGQGQNISGKAPKAEPKQ------DI 278 D++G A F G G + GK EP DI Sbjct: 250 A-----------------DHSGYAGEL--GFRAFSGSGNRLDGKKKGVEPSPSPIKPGDI 290 Query: 279 KDMKITFDGEPAKLDLPEGQLFFGFPMVLPKEDEESAAGSKSSEQNFQGQGISLRK 334 K ++ + K+ F L K+ EE AG + F G+G SLRK Sbjct: 291 KRGIPNYEFKLGKI------TFIRNSRPLVKKVEEDEAGGRFVA--FSGEGQSLRK 338 >sp|Q19584|UFD1_CAEEL (F19B6.2)UBIQUITIN FUSION DEGRADATION PROTEIN 1 HOMOLOG (UB FUSION PROTEIN 1).[Caenorhabditis elegans] Length = 342 Score = 170 bits (427), Expect = 2e-41 Identities = 123/327 (37%), Positives = 174/327 (52%), Gaps = 22/327 (6%) Query: 21 FEEFFRCY-PIAMMNDRIRK-DDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGR 78 +++ F Y P+ + N K + N+GGKI LP SAL+ L NI PMLFKLT R Sbjct: 21 YDQTFVVYGPVFLPNATQSKISEINYGGKILLPSSALNLLMQYNIPMPMLFKLTNMAVQR 80 Query: 79 VTHGGVLEFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDIS 138 VTH GVLEF A EG+ LP WMM+ LG+ G ++I S +P F KL+P S++FL+I+ Sbjct: 81 VTHCGVLEFSAPEGQAILPLWMMQQLGLDDGDTIRIESATLPKATFAKLKPMSLEFLNIT 140 Query: 139 DPKAVLENVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAP 198 +PKAVLE LR ++ LT +D I SY G+T + ++++KP + S+C+IE D+ DF P Sbjct: 141 NPKAVLEVELRKYACLTKNDRIPTSYAGQTLEFLVVDLKP---ANSVCIIECDVNLDFDP 197 Query: 199 PVGYVEPDYK---ALKAQQDKEKKNSF-GKGQVLDPSVLGQGSMSTRI-DYAGIANSSRN 253 P GYVE + A+ A+ ++F G GQ S G G +T + AG + Sbjct: 198 PEGYVEQPRQVTPAVTAKPPAPDASAFIGAGQKAGGSG-GTGQNATSVFGGAGRRLDGKK 256 Query: 254 KLSKFV----GQGQNISGKAPKAEPKQDIKDMKITFDGEPAKLDLPEGQLFFGFPM--VL 307 K S V G G + S AP A I + + D +P ++ L + + VL Sbjct: 257 KPSSSVSLSDGTGVSTSNAAPVANDLPAIPPVVVNEDYKPGRVSF----LRYDYKRVDVL 312 Query: 308 PKEDEESAAGSKSSEQN-FQGQGISLR 333 KE E A N F+G +LR Sbjct: 313 EKELREKEASKAGQPSNVFRGGNRTLR 339 >tr|AC005315|O81075 (T9I4.15)PUTATIVE UBIQUITIN.[Arabidopsis thaliana] Length = 292 Score = 169 bits (425), Expect = 3e-41 Identities = 99/263 (37%), Positives = 144/263 (54%), Gaps = 31/263 (11%) Query: 47 KIFLPPSALSKLSMLNIRYPMLFKLTANETGRVTHGGVLEFIAEEGRVYLPQWMMETLGI 106 + +PPSAL +L+ L+I YPMLF+L+ + +H GVLEF A+EG VYLP WMM+ + + Sbjct: 10 QFIMPPSALDRLASLHIEYPMLFQLSNVSVEKTSHCGVLEFTADEGLVYLPYWMMQNMSL 69 Query: 107 QPGSLLQISSTDVPLGQFVKLEPQSVDFLDISDPKAVLENVLRNFSTLTVDDVIEISYNG 166 + G ++Q+ + + G ++KL+P + DFLDIS+PKA+LE LR++S LT D I + YN Sbjct: 70 EEGDVMQVKNISLVKGTYIKLQPHTQDFLDISNPKAILETTLRSYSCLTTGDTIMVPYNN 129 Query: 167 KTFKIKILEVKPESSSKSICVIETDLVTDFAPPVGYVEPDYKALKAQQDKEKKNSFGKGQ 226 K + I ++E KP S ++ +IETD DFAPP+ Y EP+ K Q Sbjct: 130 KQYYINVVEAKP---SSAVSIIETDCEVDFAPPLDYKEPE-----------------KPQ 169 Query: 227 VLDPSVLGQGSMSTRIDYAGIANSSRNKLSKFVGQGQNISGKA-PKAEP---KQDIKDMK 282 L PS ++ S K + F G G+ + GKA + EP KQ K + Sbjct: 170 KLTPS----NKRPLQVKEEEEPASKVPKFTPFTGSGKRLDGKAQTQTEPEDTKQQEKPTE 225 Query: 283 ITFDGEPAKLDLP---EGQLFFG 302 D E + P G+L FG Sbjct: 226 NGKDDEKLSVTTPRQISGKLVFG 248 >tr|Z69635|Q9U3I6 (F19B6.2B)F19B6.2B PROTEIN.[Caenorhabditis elegans] Length = 336 Score = 169 bits (425), Expect = 3e-41 Identities = 118/305 (38%), Positives = 164/305 (53%), Gaps = 20/305 (6%) Query: 41 DANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGRVTHGGVLEFIAEEGRVYLPQWM 100 + N+GGKI LP SAL+ L NI PMLFKLT RVTH GVLEF A EG+ LP WM Sbjct: 37 EINYGGKILLPSSALNLLMQYNIPMPMLFKLTNMAVQRVTHCGVLEFSAPEGQAILPLWM 96 Query: 101 METLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISDPKAVLENVLRNFSTLTVDDVI 160 M+ LG+ G ++I S +P F KL+P S++FL+I++PKAVLE LR ++ LT +D I Sbjct: 97 MQQLGLDDGDTIRIESATLPKATFAKLKPMSLEFLNITNPKAVLEVELRKYACLTKNDRI 156 Query: 161 EISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAPPVGYVEPDYK---ALKAQQDKE 217 SY G+T + ++++KP + S+C+IE D+ DF PP GYVE + A+ A+ Sbjct: 157 PTSYAGQTLEFLVVDLKP---ANSVCIIECDVNLDFDPPEGYVEQPRQVTPAVTAKPPAP 213 Query: 218 KKNSF-GKGQVLDPSVLGQGSMSTRI-DYAGIANSSRNKLSKFV----GQGQNISGKAPK 271 ++F G GQ S G G +T + AG + K S V G G + S AP Sbjct: 214 DASAFIGAGQKAGGSG-GTGQNATSVFGGAGRRLDGKKKPSSSVSLSDGTGVSTSNAAPV 272 Query: 272 AEPKQDIKDMKITFDGEPAKLDLPEGQLFFGFPM--VLPKEDEESAAGSKSSEQN-FQGQ 328 A I + + D +P ++ L + + VL KE E A N F+G Sbjct: 273 ANDLPAIPPVVVNEDYKPGRVSF----LRYDYKRVDVLEKELREKEASKAGQPSNVFRGG 328 Query: 329 GISLR 333 +LR Sbjct: 329 NRTLR 333 >tr|AF083031|Q9SEV9 (UFD1)UBIQUITIN FUSION DEGRADATION PROTEIN.[Guillardia theta] Length = 175 Score = 106 bits (262), Expect = 4e-22 Identities = 60/167 (35%), Positives = 94/167 (55%), Gaps = 7/167 (4%) Query: 26 RCYPIAMMNDRIRKDDANFGGKIFLPPSALSKLSMLNIRYPMLFKLTANETGRVTHGGVL 85 + YP++ I K G KI LP S L+ L+ + P++F++ + + H GV Sbjct: 9 KTYPLSF----IGKSFLENGDKIVLPQSILNYLNQNDDLNPIIFEILNLDNNKKCHCGVY 64 Query: 86 EFIAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISDPKAVLE 145 EF +++G Y+P WM + L I GS L + G F+K++PQ +F IS+PKA+LE Sbjct: 65 EFTSDDGCAYIPYWMFKNLEINEGSPLCFIQKCLEKGYFLKIQPQQKEFFQISNPKAILE 124 Query: 146 NVLRNFSTLTVDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDL 192 LR +++LT + I I YN + + I+EVKP +I +I+TDL Sbjct: 125 LNLRKYTSLTKKNTISIEYNNNIYWLNIVEVKP---GNAINIIDTDL 168 >tr|Z97338|O23395 (AT4G15420)SIMILAR TO UFD1 PROTEIN (UFD1 LIKE PROTEIN).[Arabidopsis thaliana] Length = 778 Score = 102 bits (252), Expect = 6e-21 Identities = 65/191 (34%), Positives = 107/191 (55%), Gaps = 18/191 (9%) Query: 45 GGKIFLPPSALSKLSMLNI--RYPMLFKLTA---NETGRVTHGGVLEFIAEEGRVYLPQ- 98 G KI LPPS ++LS + P+ F+L+ + + TH GVLEF AE+G + LP Sbjct: 308 GDKIKLPPSCFTELSDQGAFDKGPLYFELSVVDHADNKKTTHSGVLEFTAEDGTIGLPPH 367 Query: 99 -W--MMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISDPKAVLENVLRNFSTLT 155 W + T L++I +P G + KL+P ++ F D+ + KA+LE +LR +TL+ Sbjct: 368 VWSNLFSTHDPMDVPLVEIRYIRLPKGSYAKLQPDNLGFSDLPNHKAILETILRQHATLS 427 Query: 156 VDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAPPVGYVEPDYKALKAQQD 215 +DDV+ ++Y ++K+++LE++P + SI V+ETD+ D V PD + + Q Sbjct: 428 LDDVLLVNYGQVSYKLQVLELRP---ATSISVLETDIEVDI------VSPDIVSDQPNQH 478 Query: 216 KEKKNSFGKGQ 226 K +GK + Sbjct: 479 VLKPLQYGKSE 489 >tn|AF315735|AAG31651 PRLI-interacting factor K (Fragment).[Arabidopsis thaliana] Length = 574 Score = 102 bits (252), Expect = 6e-21 Identities = 65/191 (34%), Positives = 107/191 (55%), Gaps = 18/191 (9%) Query: 45 GGKIFLPPSALSKLSMLNI--RYPMLFKLTA---NETGRVTHGGVLEFIAEEGRVYLPQ- 98 G KI LPPS ++LS + P+ F+L+ + + TH GVLEF AE+G + LP Sbjct: 104 GDKIKLPPSCFTELSDQGAFDKGPLYFELSVVDHADNKKTTHSGVLEFTAEDGTIGLPPH 163 Query: 99 -W--MMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDISDPKAVLENVLRNFSTLT 155 W + T L++I +P G + KL+P ++ F D+ + KA+LE +LR +TL+ Sbjct: 164 VWSNLFSTHDPMDVPLVEIRYIRLPKGSYAKLQPDNLGFSDLPNHKAILETILRQHATLS 223 Query: 156 VDDVIEISYNGKTFKIKILEVKPESSSKSICVIETDLVTDFAPPVGYVEPDYKALKAQQD 215 +DDV+ ++Y ++K+++LE++P + SI V+ETD+ D V PD + + Q Sbjct: 224 LDDVLLVNYGQVSYKLQVLELRP---ATSISVLETDIEVDI------VSPDIVSDQPNQH 274 Query: 216 KEKKNSFGKGQ 226 K +GK + Sbjct: 275 VLKPLQYGKSE 285 >tr|AE001179|O51745 (BB0805)POLYRIBONUCLEOTIDE NUCLEOTIDYLTRANSFERASE (PNPA).[Borrelia burgdorferi] Length = 722 Score = 34.8 bits (78), Expect = 1.4 Identities = 32/88 (36%), Positives = 44/88 (49%), Gaps = 13/88 (14%) Query: 217 EKKNSFGKGQVLDPSVLGQGSMSTRID-----YAGIANSSRNKLSKFVGQGQNISGKA-- 269 +K NSFG L P+ +G +STR+ Y + N+ S+F G G+NI G A Sbjct: 630 KKINSFGAFIELTPAK--EGFLSTRLKPRDSKYGSGRFGNSNRYSRFGGGGENIRGNAGL 687 Query: 270 ---PKAEPKQDIKDMKITFDGEPAKLDL 294 PK E Q IK +KI + K+DL Sbjct: 688 VRPPKLEEGQRIK-VKIIDIDKFGKIDL 714 >tr|AC010793|Q9MA08 F20B17.10.[Arabidopsis thaliana] Length = 1487 Score = 33.6 bits (75), Expect = 3.2 Identities = 19/65 (29%), Positives = 36/65 (55%), Gaps = 2/65 (3%) Query: 175 EVKPESSSKSICVIETDLVTDFAPPVGYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLG 234 +V +S+++ V T L T + VGY++P+Y ++ Q +K + + G VL + G Sbjct: 574 KVSDFGTSRTVTVDHTHLTTVVSGTVGYMDPEY--FQSSQFTDKSDVYSFGVVLAELITG 631 Query: 235 QGSMS 239 + S+S Sbjct: 632 EKSVS 636 >tr|AC010924|Q9S9M2 (T24D18.23)T24D18.23 PROTEIN.[Arabidopsis thaliana] Length = 700 Score = 33.6 bits (75), Expect = 3.2 Identities = 17/50 (34%), Positives = 26/50 (52%) Query: 174 LEVKPESSSKSICVIETDLVTDFAPPVGYVEPDYKALKAQQDKEKKNSFG 223 ++V +S+S+ + +T L T A GYV+P+Y DK SFG Sbjct: 502 VKVSDFGTSRSVTIDQTHLTTQVAGTFGYVDPEYFQSSKFTDKSDVYSFG 551 >tr|Z97182|O07779 (RV0599C..)HYPOTHETICAL 8.2 KDA PROTEIN.[Mycobacterium tuberculosis] Length = 78 Score = 33.6 bits (75), Expect = 3.2 Identities = 16/45 (35%), Positives = 28/45 (61%), Gaps = 5/45 (11%) Query: 92 GRVYLPQWMMETLGIQPGSLLQISSTD-----VPLGQFVKLEPQS 131 GR+ +P+ + E LG+QPGS ++IS +P G+ +LE ++ Sbjct: 9 GRIVVPKPLREALGLQPGSTVEISRYGAGLHLIPTGRTARLEEEN 53 >tr|AC013289|Q9SFH8 (T6C23.7)HYPOTHETICAL 88.6 KDA PROTEIN.[Arabidopsis thaliana] Length = 792 Score = 33.2 bits (74), Expect = 4.1 Identities = 19/65 (29%), Positives = 36/65 (55%), Gaps = 2/65 (3%) Query: 175 EVKPESSSKSICVIETDLVTDFAPPVGYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLG 234 +V +S+++ V T L T + VGY++P+Y ++ Q +K + + G VL + G Sbjct: 588 KVSDFGTSRTVTVDHTHLTTVVSGTVGYMDPEY--FQSSQFTDKSDVYSFGVVLVELITG 645 Query: 235 QGSMS 239 + S+S Sbjct: 646 EKSIS 650 >tr|AC010924|Q9S9M6 (T24D18.19)T24D18.19 PROTEIN.[Arabidopsis thaliana] Length = 1016 Score = 32.8 bits (73), Expect = 5.4 Identities = 21/67 (31%), Positives = 33/67 (48%), Gaps = 2/67 (2%) Query: 175 EVKPESSSKSICVIETDLVTDFAPPVGYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLG 234 +V +S+SI + +T L T A GY++P+Y DK SF G VL + G Sbjct: 948 KVSDFGTSRSITIAQTHLTTLVAGTFGYMDPEYFLSSQYTDKSDVYSF--GVVLVELITG 1005 Query: 235 QGSMSTR 241 + +S + Sbjct: 1006 EKPLSRK 1012 >tr|AC010924|Q9S9M4 (T24D18.21)T24D18.21 PROTEIN.[Arabidopsis thaliana] Length = 664 Score = 32.5 bits (72), Expect = 7.1 Identities = 18/61 (29%), Positives = 33/61 (53%), Gaps = 2/61 (3%) Query: 175 EVKPESSSKSICVIETDLVTDFAPPVGYVEPDYKALKAQQDKEKKNSFGKGQVLDPSVLG 234 +V +S+S+ + +T L T A GYV+P+Y ++ + EK + + G VL + G Sbjct: 472 KVSDFGTSRSVTIDQTHLTTQVAGTFGYVDPEY--FQSSKFTEKSDVYSFGVVLVELLTG 529 Query: 235 Q 235 + Sbjct: 530 E 530 >tr|AF020904|O16859 (MAFP3E)AGGREGATION F ACTOR PROTEIN 3, FORM E (FRAGMENT).[Microciona prolifera] Length = 825 Score = 32.1 bits (71), Expect = 9.3 Identities = 24/91 (26%), Positives = 44/91 (47%), Gaps = 11/91 (12%) Query: 88 IAEEGRVYLPQWMMETLGIQPGSLLQISSTDVPLGQFVKLEPQSVDFLDIS-----DPKA 142 +AEEG Y P + T+ I P S ++ ++++ L LE + L I+ D + Sbjct: 329 MAEEGEDYDPANVPSTVTIAPNSSMECFTSNLVLDDGESLEEDEIVVLSIAAVDPDDSRI 388 Query: 143 VLENVLRNFSTLTVDD----VIEISYNGKTF 169 ++ NV N + + +DD VI + + T+ Sbjct: 389 IVSNV--NVTVVIIDDDELQVITVQFEQSTY 417 >tr|AB037819|Q9P2E9 (KIAA1398)KIAA1398 PROTEIN (FRAGMENT).[Homo sapiens] Length = 1456 Score = 32.1 bits (71), Expect = 9.3 Identities = 22/76 (28%), Positives = 33/76 (42%) Query: 260 GQGQNISGKAPKAEPKQDIKDMKITFDGEPAKLDLPEGQLFFGFPMVLPKEDEESAAGSK 319 G+G I GK + Q K IT G+ A+ EG+ G P K D + G K Sbjct: 785 GEGAPIQGKKADSVANQGTKVEGITNQGKKAEGSPSEGKKAEGSPNQGKKADAAANQGKK 844 Query: 320 SSEQNFQGQGISLRKS 335 + + QG+ + +S Sbjct: 845 TESASVQGRNTDVAQS 860 >tr|AE004191|Q9KSZ6 (VC1110)SERYL-TRNA SYNTHETASE.[Vibrio cholerae] Length = 435 Score = 32.1 bits (71), Expect = 9.3 Identities = 29/124 (23%), Positives = 50/124 (39%), Gaps = 5/124 (4%) Query: 206 DYKALKAQQDKEKKNSFGKGQVLDPSV---LGQGSMSTRIDYAGIANSSRNKLSKFVGQG 262 D K L+ + D+ +G LD L + S +++ + S+RN +SK +GQ Sbjct: 3 DSKLLRTELDETAAKLARRGFKLDVETIRTLEEQRKSIQVEVENL-QSTRNSISKQIGQL 61 Query: 263 QNISGKAPKAEPKQDIKDMKITFDGEPAKLDLPEGQLFFGFPMVLPKEDEESAAGSKSSE 322 KA KQ I + D + +LD QL +P +++ K Sbjct: 62 MASGDKAGAEAVKQQIGTLGDDLDAKKVELDAVMAQL-DAITQTVPNIPDDAVPNGKDDS 120 Query: 323 QNFQ 326 +N + Sbjct: 121 ENVE 124 >tn|AL132765|CAC10588 (RRBP1)BA462D18.3.2 (ribosome binding protein 1 (dog 180 kDa homolog)) (Fragment).[Homo sapiens] Length = 1208 Score = 32.1 bits (71), Expect = 9.3 Identities = 22/76 (28%), Positives = 33/76 (42%) Query: 260 GQGQNISGKAPKAEPKQDIKDMKITFDGEPAKLDLPEGQLFFGFPMVLPKEDEESAAGSK 319 G+G I GK + Q K IT G+ A+ EG+ G P K D + G K Sbjct: 536 GEGAPIQGKKADSVANQGTKVEGITNQGKKAEGSPSEGKKAEGSPNQGKKADAAANQGKK 595 Query: 320 SSEQNFQGQGISLRKS 335 + + QG+ + +S Sbjct: 596 TESASVQGRNTDVAQS 611 Database: swiss_nr Posted date: Jan 26, 2001 6:11 AM Number of letters in database: 33,669,062 Number of sequences in database: 92,100 Database: swiss_varsplic_nr Posted date: Jan 26, 2001 6:11 AM Number of letters in database: 1,587,947 Number of sequences in database: 2435 Database: trembl_new_nr Posted date: Jan 26, 2001 6:12 AM Number of letters in database: 15,364,861 Number of sequences in database: 46,874 Database: trembl_nr Posted date: Jan 26, 2001 6:16 AM Number of letters in database: 115,571,020 Number of sequences in database: 358,354 Database: trembl_varsplic_nr Posted date: Jan 26, 2001 6:17 AM Number of letters in database: 391,702 Number of sequences in database: 522 Lambda K H 0.315 0.136 0.382 Gapped Lambda K H 0.270 0.0470 0.230 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 107471254 Number of Sequences: 500285 Number of extensions: 4473755 Number of successful extensions: 7695 Number of sequences better than 10.0: 27 N umber of HSP's better than 10.0 without gapping: 20 Number of HSP's successfully gapped in prelim test: 7 Number of HSP's that attempted gapping in prelim test: 7650 Number of HSP's gapped (non-prelim): 32 length of query: 361 length of database: 166,584,592 effective HSP length: 57 effective length of query: 304 effective length of database: 138,068,347 effective search space: 41972777488 effective search space used: 41972777488 T: 11 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.8 bits) X3: 64 (24.9 bits) S1: 42 (22.0 bits) S2: 71 (32.1 bits) Thank you for using BLAST2.0

 

 

 

 


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