YRC Public Data Repository - Protein Structure Prediction

Protein:	YPR045C
Organism:	Saccharomyces cerevisiae
Length:	470 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 YPR045C.

Description	E-value	Query Range	Subject Range
YPR045C - Protein of unknown function; involvement in splicing based on pre-mRNA accumulation defect for many ... gi\|190407986 - gi\|190407986\|gb\|EDV11251.1\| conserved hypothetical protein [Saccharomyces cerevisiae RM11-1a] THP3_YEAST - Protein THP3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=THP3 PE=1 SV=1	0.0	[1..470]	[1..470]
gi\|169158443, gi... - gi\|24308382\|ref\|NP_443157.1\| leukocyte receptor cluster member 8 [Homo sapiens], gi\|23271985\|gb\|AAH2... gi\|123998545, gi... - gi\|157928829\|gb\|ABW03700.1\| leukocyte receptor cluster (LRC) member 8 [synthetic construct], gi\|1239...	0.0	[21..434]	[394..789]
gi\|32411937, gi\|... - gi\|32411937\|ref\|XP_326449.1\| hypothetical protein [Neurospora crassa], gi\|28923940\|gb\|EAA33100.1\| hy... gi\|85107258 - gi\|85107258\|ref\|XP_962336.1\| hypothetical protein NCU06594 [Neurospora crassa OR74A]	1.0E-96	[27..469]	[78..516]
LENG8_MOUSE - Leukocyte receptor cluster member 8 homolog OS=Mus musculus GN=Leng8 PE=1 SV=1	1.0E-93	[21..394]	[395..749]
gi\|32399045, gi\|... - gi\|46229207\|gb\|EAK90056.1\| SAC3/GANP/Rpn12p family [Cryptosporidium parvum Iowa II], gi\|32399045\|emb... gi\|66475964 - gi\|66475964\|ref\|XP_627798.1\| SAC3/GANP/Rpn12p family [Cryptosporidium parvum Iowa II]	2.0E-85	[28..459]	[246..681]
CG6700-PB, CG6700-PA - This gene is referred to in FlyBase by the symbol Dmel\CG6700 (CG6700, FBgn0032305). It is a protein...	2.0E-85	[18..432]	[445..864]
SPBC2A9.11c - nuclear export factor THP3_SCHPO - THP3 homolog C2A9.11c OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBC2A9.11c PE=3 SV=...	9.0E-83	[56..469]	[28..394]
gi\|30679794 - gi\|30679794\|ref\|NP_187280.2\| unknown protein [Arabidopsis thaliana]	1.0E-74	[4..409]	[296..767]

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Predicted Domain #1

Region A:
Residues: [1-192]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQNPYGHFTN NTTEDREASS QGGPFGQSLN RPLDYAGSFP SLTYNNNNFI ANQQPSLPLP  60
   61 EPRLSWNNVN QVSNPLMVTP LPGLQKRMNK NIKKKLPRVS KKASALSNGV SGNVMSNSNI 120
  121 VGHGAVGSAS GWKVEMGGSD ELERRKRRAE RFSQGPSATT NSNDNLNEDF ANLNAISSKS 180
  181 HQYDKKIHVV GR

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.242	a.118.1	ARM repeat
View	Download	0.212	d.95.2	Homing endonucleases

Predicted Domain #2

Region A:
Residues: [193-470]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 CQTLEKSYLR LTSEPNPDLI RPPNILQKMY CLLMDKYQSK TATYTYLCDQ FKSMRQDLRV  60
   61 QMIENSFTIK VYQTHARIAL ENGDLGEFNQ CQNRIMALFE NPTIPKKSYS EFICYSVLYS 120
  121 MLTEDYPSIS HLKLKLIDDG SSEILEDEHV KMIFELSDMK LVGNYHYFMK NYLKLHKFEK 180
  181 CLINSFLNLE KLIFLTIICK SYNQVNLDFV KSEFNFNSIE ETTNFLNEQN LTEFILNKQI 240
  241 TDSNGKSSNI KILNTKGCRV QLIQNYMKSK KIDIKGQK

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	108.69897
Match:	PF03399
Description:	SAC3/GANP/Nin1/mts3/eIF-3 p25 family

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [237-470]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TYLCDQFKSM RQDLRVQMIE NSFTIKVYQT HARIALENGD LGEFNQCQNR IMALFENPTI  60
   61 PKKSYSEFIC YSVLYSMLTE DYPSISHLKL KLIDDGSSEI LEDEHVKMIF ELSDMKLVGN 120
  121 YHYFMKNYLK LHKFEKCLIN SFLNLEKLIF LTIICKSYNQ VNLDFVKSEF NFNSIEETTN 180
  181 FLNEQNLTEF ILNKQITDSN GKSSNIKILN TKGCRVQLIQ NYMKSKKIDI KGQK

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	1.46
Match:	1rz4A
Description:	Crystal Structure of Human eIF3k
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.36800795249393	bayes_pls_golite062009
RNA binding	1.78069099517213	bayes_pls_golite062009
sequence-specific DNA binding	1.67826024217505	bayes_pls_golite062009
nucleic acid binding	1.59410102249793	bayes_pls_golite062009
transcription repressor activity	1.20954331617098	bayes_pls_golite062009
mRNA binding	1.10283692106023	bayes_pls_golite062009
transcription regulator activity	1.08645493064764	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.01831614309793	bayes_pls_golite062009
DNA binding	0.956143892328242	bayes_pls_golite062009
protein binding	0.914877292844892	bayes_pls_golite062009
transcription factor activity	0.371244009721798	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: