YRC Public Data Repository - Protein Structure Prediction

Protein:	CLP1
Organism:	Saccharomyces cerevisiae
Length:	445 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 CLP1.

Description	E-value	Query Range	Subject Range
CLP1_YEAS7 - mRNA cleavage and polyadenylation factor CLP1 OS=Saccharomyces cerevisiae (strain YJM789) GN=CLP1 PE... CLP1 - Subunit of cleavage factor I (CFI), involved in both the endonucleolyitc cleavage and polyadenylatio... CLP1_YEAST - mRNA cleavage and polyadenylation factor CLP1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288...	0.0	[1..445]	[1..445]
CLP1_RAT - Polyribonucleotide 5'-hydroxyl-kinase Clp1 OS=Rattus norvegicus GN=Clp1 PE=2 SV=1 CLP1_MOUSE - Polyribonucleotide 5'-hydroxyl-kinase Clp1 OS=Mus musculus GN=Clp1 PE=1 SV=1	0.0	[13..445]	[2..423]
CLP1_MACFA - Polyribonucleotide 5'-hydroxyl-kinase Clp1 OS=Macaca fascicularis GN=CLP1 PE=2 SV=1 gi\|109106241 - gi\|109106241\|ref\|XP_001101762.1\| PREDICTED: ATP/GTP-binding protein [Macaca mulatta] CCDS7964.1_1 - null ENSCJAT00000016978 - null CLP1 - CLP1, cleavage and polyadenylation factor I subunit, homolog (S. cerevisiae)	0.0	[14..445]	[3..423]
CLP1_ARATH - Protein CLP1 homolog OS=Arabidopsis thaliana GN=CLPS3 PE=1 SV=1	2.0E-91	[17..445]	[17..442]
SPAC22H10.05c - mRNA cleavage and polyadenylation specificity factor complex subunit CLP1_SCHPO - mRNA cleavage and polyadenylation factor clp1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843)...	7.0E-90	[24..445]	[2..456]
clpf-1 - status:Confirmed UniProt:P52874 protein_id:CAA84329.1	4.0E-86	[22..445]	[5..423]
gi\|10175104, gi\|... - gi\|15615047\|ref\|NP_243350.1\| signal recognition particle [Bacillus halodurans C-125], gi\|10175104\|db... gi\|25294422 - pir\|\|D83960 signal recognition particle ffh [imported] - Bacillus halodurans (strain C-125)	3.0E-72	[38..312]	[15..253]
gi\|16800981 - gi\|16800981\|ref\|NP_471249.1\| hypothetical protein lin1915 [Listeria innocua Clip11262] gi\|25294417, gi\|... - pir\|\|AI1671 signal recognition particle protein Ffh homolog ffh [imported] - Listeria innocua (strai...	1.0E-71	[39..312]	[16..253]

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Predicted Domain #1

Region A:
Residues: [1-106]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MASLPGIDEH TTSEELITGD NEWHKLVIPK GSDWQIDLKA EGKLIVKVNS GIVEIFGTEL  60
   61 AVDDEYTFQN WKFPIYAVEE TELLWKCPDL TTNTITVKPN HTMKYI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	47.045757
Match:	1jpjA_
Description:	Signal sequence recognition protein Ffh; GTPase domain of the signal sequence recognition protein Ffh
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [107-362]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YNLHFMLEKI RMSNFEGPRV VIVGGSQTGK TSLSRTLCSY ALKFNAYQPL YINLDPQQPI  60
   61 FTVPGCISAT PISDILDAQL PTWGQSLTSG ATLLHNKQPM VKNFGLERIN ENKDLYLECI 120
  121 SQLGQVVGQR LHLDPQVRRS GCIVDTPSIS QLDENLAELH HIIEKLNVNI MLVLCSETDP 180
  181 LWEKVKKTFG PELGNNNIFF IPKLDGVSAV DDVYKRSLQR TSIREYFYGS LDTALSPYAI 240
  241 GVDYEDLTIW KPSNVF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	47.045757
Match:	1jpjA_
Description:	Signal sequence recognition protein Ffh; GTPase domain of the signal sequence recognition protein Ffh
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [363-445]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DNEVGRVELF PVTITPSNLQ HAIIAITFAE RRADQATVIK SPILGFALIT EVNEKRRKLR  60
   61 VLLPVPGRLP SKAMILTSYR YLE

[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.

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