YRC Public Data Repository - Protein Structure Prediction

Protein:	TPO4
Organism:	Saccharomyces cerevisiae
Length:	659 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for TPO4.

Description	E-value	Query Range	Subject Range
TPO4_YEAST - Polyamine transporter 4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TPO4 PE=1 SV=1 TPO4 - Polyamine transport protein, recognizes spermine, putrescine, and spermidine; localizes to the plasm...	0.0	[1..659]	[1..659]
YCT4_SCHPO - Uncharacterized transporter C794.04c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPCC7... SPCC794.04c - membrane transporter	9.0E-86	[11..553]	[42..545]
gi\|15927932, gi\|... - gi\|15927932\|ref\|NP_375465.1\| hypothetical protein SA2142 [Staphylococcus aureus subsp. aureus N315],... gi\|253314692 - gi\|253314692\|ref\|ZP_04837905.1\| hypothetical protein SauraC_00665 [Staphylococcus aureus subsp. aure... gi\|12003106, gi\|... - pir\|\|C90035 hypothetical protein SA2142 [imported] - Staphylococcus aureus (strain N315), gi\|120031... gi\|255007128 - gi\|255007128\|ref\|ZP_05145729.2\| hypothetical protein SauraM_11685 [Staphylococcus aureus subsp. aure... gi\|14248126, gi\|... - gi\|15925342\|ref\|NP_372876.1\| multidrug resistance protein [Staphylococcus aureus subsp. aureus Mu50]... gi\|269203983\|ref... - EmrB/QacA family drug resistance transporter [Staphylococcus aureus subsp. aureus ED98] gi\|90583610, gi\|... - gi\|90583610\|ref\|ZP_01239364.1\| Drug resistance transporter EmrB/QacA subfamily [Staphylococcus aureu... gi\|147741858, gi... - gi\|90585929\|ref\|ZP_01241634.1\| Drug resistance transporter EmrB/QacA subfamily [Staphylococcus aureu... gi\|156980667, gi... - gi\|156980667\|ref\|YP_001442926.1\| hypothetical protein SAHV_2336 [Staphylococcus aureus subsp. aureus...	2.0E-83	[3..523]	[45..555]
lcl\|NC_016856.1_... - [gene=emrB] [protein=putative multidrug transport protein] [protein_id=YP_005238915.1] [location=298... gi\|16766126, gi\|... - gi\|16766126\|ref\|NP_461741.1\| putative multidrug transport protein [Salmonella typhimurium LT2], gi\|1... gi\|167992539, gi... - gi\|205329344\|gb\|EDZ16108.1\| multidrug resistance protein B [Salmonella enterica subsp. enterica sero...	6.0E-81	[84..520]	[5..429]
gi\|16761596 - gi\|16761596\|ref\|NP_457213.1\| multidrug resistance protein B [Salmonella enterica subsp. enterica ser... gi\|25306158, gi\|... - gi\|25306158\|pir\|\|AG0842 multidrug resistance protein B [imported] - Salmonella enterica subsp. enter... gi\|29138709, gi\|... - gi\|29143076\|ref\|NP_806418.1\| multidrug resistance protein B [Salmonella enterica subsp. enterica ser... gi\|213850377 - gi\|213850377\|ref\|ZP_03381275.1\| multidrug resistance protein B [Salmonella enterica subsp. enterica ... gi\|214000013 - gi\|214000013\|ref\|ZP_03410748.1\| multidrug resistance protein B [Salmonella enterica subsp. enterica ...	1.0E-80	[84..520]	[5..429]
gi\|13702155, gi\|... - gi\|13702161\|dbj\|BAB43818.1\| CaNAG4 [Candida albicans], gi\|13702155\|dbj\|BAB43815.1\| CaNAG4 [Candida a... gi\|238882925 - gi\|238882925\|gb\|EEQ46563.1\| hypothetical protein CAWG_04919 [Candida albicans WO-1]	2.0E-80	[3..553]	[36..574]
gi\|229896373, gi... - gi\|229896373\|ref\|ZP_04511542.1\| multidrug resistance protein B [Yersinia pestis Pestoides A], gi\|229... gi\|229899449, gi... - gi\|229899449\|ref\|ZP_04514592.1\| multidrug resistance protein B [Yersinia pestis biovar Orientalis st... gi\|165926632, gi... - gi\|165926632\|ref\|ZP_02222464.1\| multidrug resistance protein B [Yersinia pestis biovar Orientalis st... gi\|22124829, gi\|... - gi\|22124829\|ref\|NP_668252.1\| multidrug resistance protein B [Yersinia pestis KIM], gi\|21957657\|gb\|AA... gi\|166213072, gi... - gi\|166213072\|ref\|ZP_02239107.1\| multidrug resistance protein B [Yersinia pestis biovar Antiqua str. ... gi\|25306154 - pir\|\|AB0397 multidrug resistance protein B [imported] - Yersinia pestis (strain CO92) gi\|165990079, gi... - gi\|166011079\|ref\|ZP_02231977.1\| multidrug resistance protein B [Yersinia pestis biovar Antiqua str. ... gi\|51595205, gi\|... - gi\|51595205\|ref\|YP_069396.1\| MFS multidrug efflux pump, emrB subunit [Yersinia pseudotuberculosis IP... gi\|45435371, gi\|... - gi\|45440514\|ref\|NP_992053.1\| multidrug resistance protein B [Yersinia pestis biovar Microtus str. 91... gi\|218930293, gi... - gi\|218930293\|ref\|YP_002348168.1\| multidrug resistance protein B [Yersinia pestis CO92], gi\|16123425\|... gi\|149364891, gi... - gi\|149364891\|ref\|ZP_01886926.1\| multidrug resistance protein B [Yersinia pestis CA88-4125], gi\|14929... gi\|145211859, gi... - gi\|145600163\|ref\|YP_001164239.1\| multidrug resistance protein B [Yersinia pestis Pestoides F], gi\|14... gi\|167421612, gi... - gi\|167421612\|ref\|ZP_02313365.1\| multidrug resistance protein B [Yersinia pestis biovar Orientalis st... gi\|167051986, gi... - gi\|167399482\|ref\|ZP_02305006.1\| multidrug resistance protein B [Yersinia pestis biovar Antiqua str. ... gi\|170025556, gi... - gi\|170025556\|ref\|YP_001722061.1\| EmrB/QacA family drug resistance transporter [Yersinia pseudotuberc... gi\|167057491, gi... - gi\|167423321\|ref\|ZP_02315074.1\| multidrug resistance protein B [Yersinia pestis biovar Mediaevalis s... gi\|162354357, gi... - gi\|77633286\|ref\|ZP_00795425.1\| COG0477: Permeases of the major facilitator superfamily [Yersinia pes... gi\|89103813, gi\|... - gi\|89103813\|ref\|ZP_01176376.1\| COG0477: Permeases of the major facilitator superfamily [Yersinia pes... Q66E38\|Q66E38_YERPS - MFS multidrug efflux pump, emrB subunit - Yersinia pseudotuberculosis gi\|186894223, gi... - gi\|186894223\|ref\|YP_001871335.1\| EmrB/QacA family drug resistance transporter [Yersinia pseudotuberc... gi\|153950510, gi... - gi\|77631828\|ref\|ZP_00794414.1\| COG0477: Permeases of the major facilitator superfamily [Yersinia pse... gi\|108808750, gi... - gi\|108808750\|ref\|YP_652666.1\| multidrug resistance protein B [Yersinia pestis Antiqua], gi\|108780663... gi\|229901211, gi... - gi\|229901211\|ref\|ZP_04516333.1\| multidrug resistance protein B [Yersinia pestis Nepal516], gi\|229681... gi\|229695246, gi... - gi\|229838880\|ref\|ZP_04459039.1\| multidrug resistance protein B [Yersinia pestis biovar Orientalis st...	4.0E-80	[93..527]	[13..435]
gi\|21225257, gi\|... - gi\|7649556\|emb\|CAB89031.1\| putative membrane transport protein. [Streptomyces coelicolor A3(2)], gi\|...	7.0E-80	[66..514]	[5..440]

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Predicted Domain #1

Region A:
Residues: [1-67]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPSSLTKTES NSDPRTNIQQ VPKALDKNVT NSGNLDSTSS STGSITEDEK RSEPNADSNN  60
   61 MTGGEPI

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.403	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.436	a.60.1	SAM/Pointed domain
View	Download	0.412	a.46.2	Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
View	Download	0.416	a.118.14	FliG
View	Download	0.344	a.28.1	ACP-like
View	Download	0.333	a.16.1	S15/NS1 RNA-binding domain
View	Download	0.329	a.144.1	PABC (PABP) domain
View	Download	0.328	a.4.13	Sigma3 and sigma4 domains of RNA polymerase sigma factors
View	Download	0.320	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.273	a.4.1	Homeodomain-like
View	Download	0.268	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.263	a.77.1	DEATH domain
View	Download	0.217	a.80.1	DNA polymerase III clamp loader subunits, C-terminal domain

Predicted Domain #2

Region A:
Residues: [68-267]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DPRDLDWDGP DDPDNPHNWS SLKKWYTTMT SAFLCLVVTM GSSLYVSSVP ELVERYHVSQ  60
   61 TLALAGLTFY LLGLSTVIGA PLSEVFGRKP VYLFSLPVSM LFTMGVGLSN GHMRIILPLR 120
  121 FLSGVFASPA LSVGSGTILD IFDVDQVSVA MTYFVLSPFL GPVLSPIMAG FATEAKGWRW 180
  181 SEWIQLIAGG LILPFIALMP

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [335-546]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GFFEAYAVIY RGVYHMSMGI SGLPFIGIGV GLWIGAFFYL YIDRKYLFPK PPAGTQPLTE  60
   61 KERTSKRTTP YRGARDAETG ELLPVVPEKF LIACKFGSVA LPIGLFWQAW TARSDVHWMA 120
  121 PVAAGVPFGF GLILIFFSVL MYFSTCYPPL TVASCLAANN LLRYVMSSVF PLFTIQMYTK 180
  181 MKIKWASTLF ALVCVVMIPI PWVFEKWGSK LR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	8.30103
Match:	1ja5A_
Description:	No description for 1ja5A_ was found.

Predicted Domain #3

Region A:
Residues: [268-334]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ETHKGIILRK RAKKRNIALK KFSREAQKEF LKTTVTITIL RPLKMLVVEP IVFVFSVYVA  60
   61 FIFAILF

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [547-607]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HKSQFGYAAM EKEAETEGGI DDVNAVDGEL NLTRMTTLRT METDPSTREK PGERLSLRRT  60
   61 H

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	8.30103
Match:	1ja5A_
Description:	No description for 1ja5A_ was found.

Predicted Domain #4

Region A:
Residues: [608-659]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TQPVPASFDR EDGQHAQNRN EPISNSLYSA IKDNEDGYSY TEMATDASAR MV

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.347	a.5.2	UBA-like
View	Download	0.342	a.64.1	Saposin
View	Download	0.360	a.5.1	DNA helicase RuvA subunit, C-terminal domain
View	Download	0.258	a.5.2	UBA-like

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits