YRC Logo
PROTEIN SEARCH:
Descriptions Names[Advanced Search]

View Structure Prediction Details

Protein: MTR4
Organism: Saccharomyces cerevisiae
Length: 1073 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



[What does the above image mean?]


[Show Ginzu Version Information]


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 MTR4.

Description E-value Query
Range		 Subject
Range
MTR4 - ATP-dependent 3'-5' RNA helicase, involved in nuclear RNA processing and degredation both as a compo...
MTR4_YEAST - ATP-dependent RNA helicase DOB1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MTR4 PE=...
 0.0 [1..1073] [1..1073]
gi|6633995, gi|2... - gi|6633995|dbj|BAA06124.2| KIAA0052 protein [Homo sapiens], sp|P42285|K052_HUMAN Protein KIAA0052
 0.0 [5..1073] [12..1046]
SK2L2_MOUSE - Superkiller viralicidic activity 2-like 2 OS=Mus musculus GN=Skiv2l2 PE=1 SV=1
gi|71681012 - gi|71681012|gb|AAH99802.1| RGD1305984 protein [Rattus norvegicus]
 0.0 [5..1073] [8..1040]
gi|7507776 - gi|7507776|pir||T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans
 0.0 [2..1072] [172..1244]
l(2)35Df-PA - The gene lethal (2) 35Df is referred to in FlyBase by the symbol Dmel\l(2)35Df (CG4152, FBgn0001986)...
gi|220943740 - gi|220943740|gb|ACL84413.1| l(2)35Df-PA [synthetic construct]
 0.0 [1..1073] [1..1055]

Back

Predicted Domain #1
Region A:
Residues: [1-109] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDSTDLFDVF EETPVELPTD SNGEKNADTN VGDTPDHTQD KKHGLEEEKE EHEENNSENK  60
   61 KIKSNKSKTE DKNKKVVVPV LADSFEQEAS REVDASKGLT NSETLQVEQ

[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.

Found no structure predictions for this domain.

Predicted Domain #2
Region A:
Residues: [110-321] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DGKVRLSHQV RHQVALPPNY DYTPIAEHKR VNEARTYPFT LDPFQDTAIS CIDRGESVLV  60
   61 SAHTSAGKTV VAEYAIAQSL KNKQRVIYTS PIKALSNQKY RELLAEFGDV GLMTGDITIN 120
  121 PDAGCLVMTT EILRSMLYRG SEVMREVAWV IFDEVHYMRD KERGVVWEET IILLPDKVRY 180
  181 VFLSATIPNA MEFAEWICKI HSQPCHIVYT NF

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 89.522879
Match: 1hv8A_
Description: Putative DEAD box RNA helicase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
nucleoside-triphosphatase activity 2.95079405147356 bayes_pls_golite062009
pyrophosphatase activity 2.87427509025394 bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides 2.85499564954033 bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 2.85178667290149 bayes_pls_golite062009
binding 2.64537357529343 bayes_pls_golite062009
transporter activity 2.58140740499725 bayes_pls_golite062009
hydrolase activity 2.55157966585974 bayes_pls_golite062009
transmembrane transporter activity 2.39695871109024 bayes_pls_golite062009
ATPase activity 2.39535714892224 bayes_pls_golite062009
ATPase activity, coupled 2.18396165590908 bayes_pls_golite062009
RNA helicase activity 1.42791449104435 bayes_pls_golite062009
nucleic acid binding 1.41477043612798 bayes_pls_golite062009
RNA-dependent ATPase activity 1.39335733374328 bayes_pls_golite062009
ATP-dependent RNA helicase activity 1.36724390116598 bayes_pls_golite062009
motor activity 1.34881124154297 bayes_pls_golite062009
substrate-specific transporter activity 1.29730375126024 bayes_pls_golite062009
protein binding 1.22129154759482 bayes_pls_golite062009
DNA binding 1.11699929651302 bayes_pls_golite062009
catalytic activity 1.00104173493322 bayes_pls_golite062009
transcription regulator activity 0.989226939888218 bayes_pls_golite062009
purine nucleotide binding 0.929901285538132 bayes_pls_golite062009
nucleotide binding 0.922442819194247 bayes_pls_golite062009
purine ribonucleotide binding 0.920987930180051 bayes_pls_golite062009
ribonucleotide binding 0.920926158369519 bayes_pls_golite062009
substrate-specific transmembrane transporter activity 0.906554174337376 bayes_pls_golite062009
ribonuclease activity 0.712344060953362 bayes_pls_golite062009
helicase activity 0.6191010101321 bayes_pls_golite062009
ligase activity 0.491120745447751 bayes_pls_golite062009
0.442119153778711 bayes_pls_golite062009
active transmembrane transporter activity 0.434775387083003 bayes_pls_golite062009
ATP binding 0.41092997612902 bayes_pls_golite062009
adenyl ribonucleotide binding 0.385813421701492 bayes_pls_golite062009
adenyl nucleotide binding 0.377870145186619 bayes_pls_golite062009
ion transmembrane transporter activity 0.355466224802969 bayes_pls_golite062009
microtubule motor activity 0.32730260506261 bayes_pls_golite062009
purine NTP-dependent helicase activity 0.29664013896754 bayes_pls_golite062009
ATP-dependent helicase activity 0.29664013896754 bayes_pls_golite062009
primary active transmembrane transporter activity 0.294474570607914 bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity 0.282352478532746 bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances 0.220608508617331 bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of substances 0.219533217661421 bayes_pls_golite062009
ATPase activity, coupled to movement of substances 0.219157471322311 bayes_pls_golite062009
GTPase activity 0.105546189348878 bayes_pls_golite062009
microfilament motor activity 0.10236059675512 bayes_pls_golite062009
transcription factor activity 0.0434163635422169 bayes_pls_golite062009
protein transporter activity 0.0397092337273124 bayes_pls_golite062009
guanyl nucleotide binding 0.0289841199143713 bayes_pls_golite062009
RNA binding 0.0261282189186349 bayes_pls_golite062009
cation transmembrane transporter activity 0.0254369227200564 bayes_pls_golite062009
guanyl ribonucleotide binding 0.0187537754688351 bayes_pls_golite062009
GTP binding 0.0171298013679982 bayes_pls_golite062009

Predicted Domain #3
Region A:
Residues: [322-455] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RPTPLQHYLF PAHGDGIYLV VDEKSTFREE NFQKAMASIS NQIGDDPNST DSRGKKGQTY  60
   61 KGGSAKGDAK GDIYKIVKMI WKKKYNPVIV FSFSKRDCEE LALKMSKLDF NSDDEKEALT 120
  121 KIFNNAIALL PETD

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 89.522879
Match: 1hv8A_
Description: Putative DEAD box RNA helicase
Matching Structure (courtesy of the PDB):

Predicted Domain #4
Region A:
Residues: [456-636] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RELPQIKHIL PLLRRGIGIH HSGLLPILKE VIEILFQEGF LKVLFATETF SIGLNMPAKT  60
   61 VVFTSVRKWD GQQFRWVSGG EYIQMSGRAG RRGLDDRGIV IMMIDEKMEP QVAKGMVKGQ 120
  121 ADRLDSAFHL GYNMILNLMR VEGISPEFML EHSFFQFQNV ISVPVMEKKL AELKKDFDGI 180
  181 E

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 25.39794
Match: 1fukA_
Description: Initiation factor 4a
Matching Structure (courtesy of the PDB):

Predicted Domain #5
Region A:
Residues: [637-752] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VEDEENVKEY HEIEQAIKGY REDVRQVVTH PANALSFLQP GRLVEISVNG KDNYGWGAVV  60
   61 DFAKRINKRN PSAVYTDHES YIVNVVVNTM YIDSPVNLLK PFNPTLPEGI RPAEEG

[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 0.322 a.4.5 "Winged helix" DNA-binding domain
View Download 0.332 a.45.1 Glutathione S-transferase (GST), C-terminal domain
View Download 0.391 d.14.1 Ribosomal protein S5 domain 2-like
View Download 0.340 d.24.1 Pili subunits
View Download 0.360 d.70.1 Yest killer toxins
View Download 0.294 c.51.1 Anticodon-binding domain of Class II aaRS
View Download 0.279 c.51.2 TolB, N-terminal domain
View Download 0.271 d.131.1 DNA clamp
View Download 0.263 c.52.2 tRNA splicing endonuclease, C-terminal domain
View Download 0.260 a.3.1 Cytochrome c
View Download 0.240 c.3.1 FAD/NAD(P)-binding domain
View Download 0.231 a.45.1 Glutathione S-transferase (GST), C-terminal domain
View Download 0.212 d.110.1 Profilin (actin-binding protein)

Predicted Domain #6
Region A:
Residues: [753-838] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EKSICAVIPI TLDSIKSIGN LRLYMPKDIR ASGQKETVGK SLREVNRRFP DGIPVLDPVK  60
   61 NMKIEDEDFL KLMKKIDVLN TKLSSN

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [852-859] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KYSRKHDL

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [940-1073] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LSCFAFQERC KEAPRLKPEL AEPLKAMREI AAKIAKIMKD SKIEVVEKDY VESFRHELME  60
   61 VVYEWCRGAT FTQICKMTDV YEGSLIRMFK RLEELVKELV DVANTIGNSS LKEKMEAVLK 120
  121 LIHRDIVSAG SLYL

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 8.05
Match: 1n1bA
Description: (+)-bornyl diphosphate synthase
Matching Structure (courtesy of the PDB):

Predicted Domain #7
Region A:
Residues: [839-851] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PLTNSMRLEE LYG

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [860-939] 
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HEDMKQLKRK ISESQAVIQL DDLRRRKRVL RRLGFCTPND IIELKGRVAC EISSGDELLL  60
   61 TELIFNGNFN ELKPEQAAAL

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 8.05
Match: 1n1bA
Description: (+)-bornyl diphosphate synthase
Matching Structure (courtesy of the PDB):
YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle