YRC Public Data Repository - Protein Structure Prediction

Protein:	BMS1
Organism:	Saccharomyces cerevisiae
Length:	1183 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 BMS1.

Description	E-value	Query Range	Subject Range
BMS1 - GTPase required for synthesis of 40S ribosomal subunits and for processing the 35S pre-rRNA at sites... BMS1_YEAST - Ribosome biogenesis protein BMS1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=BMS1 PE... gi\|190407746 - gi\|190407746\|gb\|EDV11011.1\| ribosome biogenesis protein BMS1 [Saccharomyces cerevisiae RM11-1a]	0.0	[1..1183]	[1..1183]
BMS1_SCHPO - Ribosome biogenesis protein bms1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=bms1 PE=1... bms1 - GTP binding protein Bms1	0.0	[2..1182]	[5..1120]
gi\|85079318 - gi\|85079318\|ref\|XP_956329.1\| hypothetical protein NCU04348 [Neurospora crassa OR74A] gi\|28917388, gi\|... - gi\|32406176\|ref\|XP_323701.1\| hypothetical protein [Neurospora crassa], gi\|28917388\|gb\|EAA27093.1\| hy...	0.0	[3..1182]	[5..1160]
CG7728-PA - This gene is referred to in FlyBase by the symbol Dmel\CG7728 (CG7728, FBgn0036686). It is a protein... gi\|220947318 - gi\|220947318\|gb\|ACL86202.1\| CG7728-PA [synthetic construct]	0.0	[1..1169]	[20..1159]
gi\|15222176 - gi\|15222176\|ref\|NP_172157.1\| unknown protein [Arabidopsis thaliana]	0.0	[4..1174]	[9..1145]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[4..1174]	[9..1136]
gi\|21410151 - gi\|21410151\|gb\|AAH30906.1\| Bms1 protein [Mus musculus]	0.0	[338..1178]	[93..934]
gi\|82541213 - gi\|82541213\|ref\|XP_724863.1\| hypothetical protein [Plasmodium yoelii yoelii str. 17XNL] gi\|23479662 - gi\|23479662\|gb\|EAA16428.1\| hypothetical protein [Plasmodium yoelii yoelii]	0.0	[2..1164]	[5..1211]

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Predicted Domain #1

Region A:
Residues: [1-174]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEQSNKQHRK AKEKNTAKKK LHTQGHNAKA FAVAAPGKMA RTMQRSSDVN ERKLHVPMVD  60
   61 RTPEDDPPPF IVAVVGPPGT GKTTLIRSLV RRMTKSTLND IQGPITVVSG KHRRLTFLEC 120
  121 PADDLNAMID IAKIADLVLL LIDGNFGFEM ETMEFLNIAQ HHGMPRVLGV ATHL

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted functions:

Term	Confidence	Notes
binding	2.43368780168847	bayes_pls_golite062009
motor activity	1.66001460462062	bayes_pls_golite062009
RNA binding	1.64085862208961	bayes_pls_golite062009
structural constituent of ribosome	1.58614825683861	bayes_pls_golite062009
microtubule motor activity	1.51492936494661	bayes_pls_golite062009
	1.40793830270505	bayes_pls_golite062009
nucleic acid binding	1.38653949159874	bayes_pls_golite062009
RNA helicase activity	1.19425264627559	bayes_pls_golite062009
RNA-dependent ATPase activity	1.16223608981327	bayes_pls_golite062009
ATP-dependent RNA helicase activity	1.13639104386803	bayes_pls_golite062009
DNA binding	1.10928092522596	bayes_pls_golite062009
transcription regulator activity	1.02050154675732	bayes_pls_golite062009
cytoskeletal protein binding	1.01452238670999	bayes_pls_golite062009
catalytic activity	0.942640875796745	bayes_pls_golite062009
structural molecule activity	0.675553718290749	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	0.661839640945953	bayes_pls_golite062009
hydrolase activity	0.59573424609875	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	0.561205936947495	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	0.561205936947495	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	0.560259345938113	bayes_pls_golite062009
tubulin binding	0.486290099514671	bayes_pls_golite062009
protein binding	0.409258528033042	bayes_pls_golite062009
helicase activity	0.389068221426991	bayes_pls_golite062009
microtubule binding	0.379674198622762	bayes_pls_golite062009
actin binding	0.332654682400232	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.191068703418711	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.188196054823553	bayes_pls_golite062009
pyrophosphatase activity	0.184212465168396	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.147137984163853	bayes_pls_golite062009
transcription factor activity	0.0836981407579493	bayes_pls_golite062009
microfilament motor activity	0.0684601046679916	bayes_pls_golite062009
ATP-dependent helicase activity	0.0655945570748848	bayes_pls_golite062009
purine NTP-dependent helicase activity	0.0655945570748848	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [175-329]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DLFKSQSTLR ASKKRLKHRF WTEVYQGAKL FYLSGVINGR YPDREILNLS RFISVMKFRP  60
   61 LKWRNEHPYM LADRFTDLTH PELIETQGLQ IDRKVAIYGY LHGTPLPSAP GTRVHIAGVG 120
  121 DFSVAQIEKL PDPCPTPFYQ QKLDDFEREK MKEEA

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [330-693]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KANGEITTAS TTRRRKRLDD KDKLIYAPMS DVGGVLMDKD AVYIDIGKKN EEPSFVPGQE  60
   61 RGEGEKLMTG LQSVEQSIAE KFDGVGLQLF SNGTELHEVA DHEGMDVESG EESIEDDEGK 120
  121 SKGRTSLRKP RIYGKPVQEE DADIDNLPSD EEPYTNDDDV QDSEPRMVEI DFNNTGEQGA 180
  181 EKLALETDSE FEESEDEFSW ERTAANKLKK TESKKRTWNI GKLIYMDNIS PEECIRRWRG 240
  241 EDDDSKDESD IEEDVDDDFF RKKDGTVTKE GNKDHAVDLE KFVPYFDTFE KLAKKWKSVD 300
  301 AIKERFLGAG ILGNDNKTKS DSNEGGEELY GDFEDLEDGN PSEQAEDNSD KESEDEDENE 360
  361 DTNG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2.221849
Match:	1i84S_
Description:	Heavy meromyosin subfragment
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [694-982]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DDDNSFTNFD AEEKKDLTME QEREMNAAKK EKLRAQFEIE EGENFKEDDE NNEYDTWYEL  60
   61 QKAKISKQLE INNIEYQEMT PEQRQRIEGF KAGSYVRIVF EKVPMEFVKN FNPKFPIVMG 120
  121 GLLPTEIKFG IVKARLRRHR WHKKILKTND PLVLSLGWRR FQTLPIYTTT DSRTRTRMLK 180
  181 YTPEHTYCNA AFYGPLCSPN TPFCGVQIVA NSDTGNGFRI AATGIVEEID VNIEIVKKLK 240
  241 LVGFPYKIFK NTAFIKDMFS SAMEVARFEG AQIKTVSGIR GEIKRALSK

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #5

Region A:
Residues: [983-1096]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PEGHYRAAFE DKILMSDIVI LRSWYPVRVK KFYNPVTSLL LKEKTEWKGL RLTGQIRAAM  60
   61 NLETPSNPDS AYHKIERVER HFNGLKVPKA VQKELPFKSQ IHQMKPQKKK TYMA

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #6

Region A:
Residues: [1097-1183]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KRAVVLGGDE KKARSFIQKV LTISKAKDSK RKEQKASQRK ERLKKLAKME EEKSQRDKEK  60
   61 KKEYFAQNGK RTTMGGDDES RPRKMRR

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

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

Predicted functions: