YRC Public Data Repository - Protein Structure Prediction

Protein:	HCS1
Organism:	Saccharomyces cerevisiae
Length:	683 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 HCS1.

Description	E-value	Query Range	Subject Range
HCS1_YEAST - DNA polymerase alpha-associated DNA helicase A OS=Saccharomyces cerevisiae (strain ATCC 204508 / S28... HCS1 - Hexameric DNA polymerase alpha-associated DNA helicase A involved in lagging strand DNA synthesis; c... gi\|151941528 - gi\|151941528\|gb\|EDN59891.1\| DNA helicase A [Saccharomyces cerevisiae YJM789]	0.0	[1..683]	[1..683]
gi\|3328175, gi\|1... - gi\|3328175\|gb\|AAC26788.1\| nonsense-mediated mRNA decay trans-acting factor [Homo sapiens], gi\|273935...	0.0	[13..682]	[257..906]
gi\|12836885, gi\|... - gi\|13507601\|ref\|NP_109605.1\| regulator of nonsense transcripts 1 [Mus musculus], gi\|12836885\|gb\|AAK0...	0.0	[13..682]	[252..901]
SMBP2_MESAU - DNA-binding protein SMUBP-2 OS=Mesocricetus auratus GN=IGHMBP2 PE=1 SV=1	0.0	[3..682]	[7..645]
gi\|19577367 - gi\|19577367\|emb\|CAD28448.1\| possible regulator of nonsense transcripts [Aspergillus fumigatus]	0.0	[11..682]	[186..842]
gi\|220960128 - gi\|220960128\|gb\|ACL92600.1\| Upf1-PA [synthetic construct] FBpp0309612, Upf1-PA - The gene Upf1 is referred to in FlyBase by the symbol Dmel\Upf1 (CG1559, FBgn0030354). It is a prote...	0.0	[13..682]	[234..886]

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Predicted Domain #1

Region A:
Residues: [1-186]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNKELASKFL SSIKHEREQD IQTTSRLLTT LSIQQLVQNG LAINNIHLEN IRSGLIGKLY  60
   61 MELGPNLAVN DKIQRGDIKV GDIVLVRPAK TKVNTKTKPK VKKVSEDSNG EQAECSGVVY 120
  121 KMSDTQITIA LEESQDVIAT TFYSYSKLYI LKTTNVVTYN RMESTMRKLS EISSPIQDKI 180
  181 IQYLVN

[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 #2

Region A:
Residues: [187-683]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ERPFIPNTNS FQNIKSFLNP NLNDSQKTAI NFAINNDLTI IHGPPGTGKT FTLIELIQQL  60
   61 LIKNPEERIL ICGPSNISVD TILERLTPLV PNNLLLRIGH PARLLDSNKR HSLDILSKKN 120
  121 TIVKDISQEI DKLIQENKKL KNYKQRKENW NEIKLLRKDL KKREFKTIKD LIIQSRIVVT 180
  181 TLHGSSSREL CSLYRDDPNF QLFDTLIIDE VSQAMEPQCW IPLIAHQNQF HKLVLAGDNK 240
  241 QLPPTIKTED DKNVIHNLET TLFDRIIKIF PKRDMVKFLN VQYRMNQKIM EFPSHSMYNG 300
  301 KLLADATVAN RLLIDLPTVD ATPSEDDDDT KIPLIWYDTQ GDEFQETADE ATILGSKYNE 360
  361 GEIAIVKEHI ENLRSFNVPE NSIGVISPYN AQVSHLKKLI HDELKLTDIE ISTVDGFQGR 420
  421 EKDVIILSLV RSNEKFEVGF LKEERRLNVA MTRPRRQLVV VGNIEVLQRC GNKYLKSWSE 480
  481 WCEENADVRY PNIDDYL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	70.154902
Match:	1pjr__
Description:	DEXX box DNA helicase
Matching Structure (courtesy of the PDB):

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