YRC Public Data Repository - Protein Structure Prediction

Protein:	pfh1
Organism:	Schizosaccharomyces pombe
Length:	805 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 pfh1.

Description	E-value	Query Range	Subject Range
gi\|3309657, gi\|1... - gi\|3309657\|gb\|AAC26139.1\| RRM3/PIF1 helicase homolog [Schizosaccharomyces pombe], pir\|\|T47241 RRM3/P...	578.0	[0..1]	[805..1]
gi\|40882151 - gi\|40882151\|emb\|CAF05978.1\| related to PIF1 protein precursor [Neurospora crassa] gi\|157072407, gi... - gi\|164429093\|ref\|XP_956692.2\| hypothetical protein NCU00428 [Neurospora crassa OR74A], gi\|157072407\|...	343.0	[0..18]	[781..92]
gi\|39940056, gi\|... - gi\|39940056\|ref\|XP_359565.1\| hypothetical protein MGG_05212 [Magnaporthe grisea 70-15], gb\|EAA52520....	338.0	[0..32]	[787..28]
gi\|46122289, gi\|... - gi\|46122289\|ref\|XP_385698.1\| hypothetical protein FG05522.1 [Gibberella zeae PH-1], gi\|42551809\|gb\|E...	335.0	[0..23]	[799..16]
gi\|85081295 - gi\|85081295\|ref\|XP_956692.1\| hypothetical protein [Neurospora crassa OR74A] gi\|32403802, gi\|... - gi\|32403802\|ref\|XP_322514.1\| hypothetical protein [Neurospora crassa], gi\|28917766\|gb\|EAA27456.1\| hy...	311.0	[0..18]	[781..92]
RRM3 - DNA helicase involved in rDNA replication and Ty1 transposition; relieves replication fork pauses at... RRM3_YEAST - ATP-dependent DNA helicase RRM3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RRM3 PE=...	289.0	[0..57]	[785..2]
gi\|70997125, gi\|... - gi\|70997125\|ref\|XP_753317.1\| mitochondrial DNA helicase (Pif1) [Aspergillus fumigatus Af293], gi\|668...	284.0	[0..269]	[799..243]
gi\|114192231, gi... - gi\|115399518\|ref\|XP_001215348.1\| DNA repair and recombination protein pif1, mitochondrial precursor ...	278.0	[0..246]	[787..146]
gi\|111060731 - gi\|111060731\|gb\|EAT81851.1\| hypothetical protein SNOG_10457 [Phaeosphaeria nodorum SN15]	278.0	[0..141]	[796..256]
gi\|90298535, gi\|... - gi\|90298535\|gb\|EAS28166.1\| hypothetical protein CIMG_09370 [Coccidioides immitis RS], gi\|119174843\|r...	272.0	[0..234]	[805..141]

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Predicted Domain #1

Region A:
Residues: [1-119]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFSCQSLYKF SHSFRKRIPV MFQRAQQKSS LLHTQNESSH QPSLNKLGGF SSASLNFNSS  60
   61 RSSTNDDQQT FSSQSDNLPS SPITLPAKRG RSAASLKQLD NTVGFDVSKP SLPVFENSG

[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: [120-164]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LGSKYSTEIA NGVYIDENDF DDDLLLENDI DQKPIPWSSS PIEHT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	44.221849
Match:	2gjkA
Description:	No description for 2gjkA was found.

Predicted Domain #3

Region A:
Residues: [165-698]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KLTKSMLSSE KRSKNHLSKI YEDHTSEKGA SSVISSNITR QGIKRSRTLP WAVDPYRYGD  60
   61 PDPKRTSTSA DISQHTVSND SSNKLSNGRS SSLDSLAKKR MSKSKSTPQI SKKFSVPLNS 120
  121 ASKSPIGSSL FKTSDSRKKS VPSIFLSDEQ KRILDMVVEQ QHSIFFTGSA GTGKSVLLRK 180
  181 IIEVLKSKYR KQSDRVAVTA STGLAACNIG GVTLHSFAGV GLARESVDLL VSKIKKNKKC 240
  241 VNRWLRTRVL IIDEVSMVDA ELMDKLEEVA RVIRKDSKPF GGIQLVLTGD FFQLPPVPEN 300
  301 GKESKFCFES QTWKSALDFT IGLTHVFRQK DEEFVKMLNE LRLGKLSDES VRKFKVLNRT 360
  361 IEYEDGLLPT ELFPTRYEVE RSNDMRMQQI NQNPVTFTAI DSGTVRDKEF RDRLLQGCMA 420
  421 PATLVLKVNA QVMLIKNIDD QLVNGSLGKV IGFIDDETYQ MEKKDAEMQG RNAFEYDSLD 480
  481 ISPFDLPDVK QKKYKLIAMR KASSTAIKWP LVRFKLPNGG ERTIVVQRET WNIE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	28.221849
Match:	1w36D
Description:	RecBCD:DNA complex
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.44689197844883	bayes_pls_golite062009
hydrolase activity	2.18454736627863	bayes_pls_golite062009
pyrophosphatase activity	1.81138802583782	bayes_pls_golite062009
helicase activity	1.70242731830224	bayes_pls_golite062009
protein-DNA loading ATPase activity	1.54436515966471	bayes_pls_golite062009
DNA clamp loader activity	1.51134988628578	bayes_pls_golite062009
nucleic acid binding	1.49633029954726	bayes_pls_golite062009
microtubule motor activity	1.35938517416356	bayes_pls_golite062009
structure-specific DNA binding	1.2539059700735	bayes_pls_golite062009
DNA-dependent ATPase activity	1.2155186842031	bayes_pls_golite062009
purine NTP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
ATP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
motor activity	1.14667913749579	bayes_pls_golite062009
double-stranded DNA binding	1.117585097627	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
transcription regulator activity	0.989226939888218	bayes_pls_golite062009
DNA binding	0.967303417236485	bayes_pls_golite062009
DNA helicase activity	0.72881469450553	bayes_pls_golite062009
ribonuclease activity	0.712344060953362	bayes_pls_golite062009
telomeric DNA binding	0.62080146588728	bayes_pls_golite062009
ATP-dependent DNA helicase activity	0.5886142102548	bayes_pls_golite062009
single-stranded DNA binding	0.568457189190858	bayes_pls_golite062009
cytoskeletal protein binding	0.500462538667228	bayes_pls_golite062009
mismatched DNA binding	0.31144582840038	bayes_pls_golite062009
RNA helicase activity	0.18426050934025	bayes_pls_golite062009
RNA-dependent ATPase activity	0.14606996093053	bayes_pls_golite062009
ATP-dependent RNA helicase activity	0.13050483816765	bayes_pls_golite062009
nucleotide binding	0.114848452385726	bayes_pls_golite062009
purine nucleotide binding	0.10713474095071	bayes_pls_golite062009
purine ribonucleotide binding	0.0916519414118148	bayes_pls_golite062009
ribonucleotide binding	0.0915913646217636	bayes_pls_golite062009
structural constituent of ribosome	0.089234257580272	bayes_pls_golite062009
protein binding	0.071010918255742	bayes_pls_golite062009
transcription factor activity	0.0434163635422169	bayes_pls_golite062009
actin binding	0.00482938540552702	bayes_pls_golite062009
DNA polymerase activity	4.95561462330096E-4	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [699-805]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LPNGEVQASR SQIPLILAYA ISIHKAQGQT LDRVKVDLGR VFEKGQAYVA LSRATTQEGL  60
   61 QVLNFSPAKV MAHPKVVQFY KQLASVNGLP IRNENKAPVQ MRGVKNK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	62.69897
Match:	2is1A
Description:	No description for 2is1A was found.

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: