YRC Public Data Repository - Protein Structure Prediction

Protein:	UME1
Organism:	Saccharomyces cerevisiae
Length:	460 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 UME1.

Description	E-value	Query Range	Subject Range
RBBP4 - retinoblastoma binding protein 4 RBBP4_MOUSE - Histone-binding protein RBBP4 OS=Mus musculus GN=Rbbp4 PE=1 SV=5 ENSCJAT00000001857 - null gi\|73949954, gi\|... - gi\|73949954\|ref\|XP_864445.1\| PREDICTED: similar to retinoblastoma binding protein 4 isoform 8 [Canis... gi\|123998073, gi... - gi\|60655333\|gb\|AAX32230.1\| retinoblastoma binding protein 4 [synthetic construct], gi\|60655331\|gb\|AA... ENSPTRT00000000953 - null RBBP4_BOVIN - Histone-binding protein RBBP4 OS=Bos taurus GN=RBBP4 PE=1 SV=3 gi\|157817007, gi... - gi\|197246471\|gb\|AAI68994.1\| Rbbp4 protein [Rattus norvegicus], gi\|157817007\|ref\|NP_001101382.1\| reti... gi\|449692 - gi\|449692\|prf\|\|1919423A retinoblastoma-binding protein tr\|M3WS50\|M3WS50... - RB binding protein 4, chromatin remodeling factor OS=Felis catus GN=RBBP4 PE=4 SV=1 gi\|126330240 - gi\|126330240\|ref\|XP_001366492.1\| PREDICTED: similar to retinoblastoma binding protein [Monodelphis d... gi\|109001615, gi... - gi\|109001618\|ref\|XP_001104493.1\| PREDICTED: retinoblastoma binding protein 4 isoform 7 [Macaca mulat...	0.0	[2..444]	[6..405]
RBBP4_CHICK - Histone-binding protein RBBP4 OS=Gallus gallus GN=RBBP4 PE=1 SV=3	0.0	[2..444]	[6..405]
gi\|182890274, gi... - gi\|28277505\|gb\|AAH45315.1\| Retinoblastoma binding protein 4 [Danio rerio], gi\|182890274\|gb\|AAI65845....	0.0	[2..444]	[6..405]
RBP4A_XENLA - Histone-binding protein RBBP4-A OS=Xenopus laevis GN=rbbp4-a PE=1 SV=3	0.0	[2..444]	[6..405]
gi\|195328823, gi... - gi\|195328823\|ref\|XP_002031111.1\| GM24205 [Drosophila sechellia], gi\|194120054\|gb\|EDW42097.1\| GM24205... gi\|195570742, gi... - gi\|195570742\|ref\|XP_002103363.1\| GD18995 [Drosophila simulans], gi\|194199290\|gb\|EDX12866.1\| GD18995 ... Caf1-PA - The gene Chromatin assembly factor 1 subunit is referred to in FlyBase by the symbol Dmel\Caf1 (CG42... gi\|220955822, gi... - gi\|220955822\|gb\|ACL90454.1\| Caf1-PA [synthetic construct], gi\|220946090\|gb\|ACL85588.1\| Caf1-PA [synt...	1.0E-99	[3..444]	[11..409]
gi\|186464325, gi... - gi\|23128981\|ref\|ZP_00110817.1\| COG2319: FOG: WD40 repeat [Nostoc punctiforme PCC 73102], gi\|18668187...	4.0E-98	[42..460]	[1167..1638]

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Predicted Domain #1

Region A:
Residues: [1-64]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSTLDIAEDN KIKNEEFKIW KKSIPSLYQH ISSLKPIFGS GVDESPSTLR SIVFTNDSSC  60
   61 NKSK

[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 #2

Region A:
Residues: [65-460]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GVLSVPLLYS QGSEIFEVDC IVPLGLHYKK PESISEPLVQ PDYTMESQKV EQTVLIPKWE  60
   61 FKGETIAKMI YVDNSEINVK VIALSTNGSL AWFREGVKSP VYTMMEPSTS LSSASSGNQN 120
  121 KPCVDFAISN DSKTLTVTKE KHLDNENATI KLIDNSGKIG EVLRTIPVPG IKNIQEIKFL 180
  181 NNQIFATCSD DGIIRFWGNE IGKKPLWILN DSLDGKTTCF AASPFVDTLF MTGTSGGALK 240
  241 VWDIRAVIAL GDADAELNIN QGHNKVNELF KVHHFYSEQV SKIEFSSISP MEVVTIGGLG 300
  301 NVYHWNFEPV FAIYNEIHED FQGIISDELE AESMAFYHTE GCRREIGENN KVNTVAYHKY 360
  361 IEDLVATVDS DGLLTVYKPF TGKVLDGSRE VGAAKS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	61.30103
Match:	1gg2B_
Description:	beta1-subunit of the signal-transducing G protein heterotrimer
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.42570478946173	bayes_pls_golite062009
transcription regulator activity	2.3610959773142	bayes_pls_golite062009
nucleic acid binding	2.30918780727915	bayes_pls_golite062009
protein binding	2.26925404328312	bayes_pls_golite062009
DNA binding	1.71685536470455	bayes_pls_golite062009
transcription activator activity	1.23969853550045	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	1.21305848427711	bayes_pls_golite062009
cytoskeletal protein binding	1.19593750149343	bayes_pls_golite062009
transcription factor activity	1.08768505897883	bayes_pls_golite062009
	0.88172763425403	bayes_pls_golite062009
transporter activity	0.692270256454453	bayes_pls_golite062009
histone binding	0.685319917508843	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.676924760416604	bayes_pls_golite062009
transcription repressor activity	0.658573452658359	bayes_pls_golite062009
DNA-dependent ATPase activity	0.612501046529002	bayes_pls_golite062009
actin binding	0.529861581509437	bayes_pls_golite062009
transcription factor binding	0.489473003915035	bayes_pls_golite062009
histone methyltransferase activity	0.311523647180993	bayes_pls_golite062009
transcription cofactor activity	0.30761651528651	bayes_pls_golite062009
structural molecule activity	0.254012051644049	bayes_pls_golite062009
protein kinase activity	0.229242350006544	bayes_pls_golite062009
transcription corepressor activity	0.182612389752591	bayes_pls_golite062009
chromatin binding	0.151977098745772	bayes_pls_golite062009
substrate-specific transporter activity	0.121183207943714	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.00585398682921312	bayes_pls_golite062009

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: