YRC Public Data Repository - Protein Structure Prediction

Protein:	APE3
Organism:	Saccharomyces cerevisiae
Length:	537 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 APE3.

Description	E-value	Query Range	Subject Range
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[1..537]	[28..564]
APE3 - Vacuolar aminopeptidase Y, processed to mature form by Prb1p APE3_YEAST - Aminopeptidase Y OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=APE3 PE=1 SV=1	0.0	[1..537]	[1..537]
TFR1_MOUSE - Transferrin receptor protein 1 OS=Mus musculus GN=Tfrc PE=1 SV=1	3.0E-77	[6..527]	[69..631]
TFR1_CANLF - Transferrin receptor protein 1 OS=Canis lupus familiaris GN=TFRC PE=1 SV=1	4.0E-72	[8..527]	[74..638]
gi\|25486574 - pir\|\|E84132 aminopeptidase BH3861 [imported] - Bacillus halodurans (strain C-125) gi\|10176486, gi\|... - gi\|15616423\|ref\|NP_244728.1\| aminopeptidase [Bacillus halodurans C-125], gi\|10176486\|dbj\|BAB07580.1\|...	7.0E-71	[57..526]	[21..458]
TFR1_FELCA - Transferrin receptor protein 1 OS=Felis catus GN=TFRC PE=1 SV=1	9.0E-71	[8..523]	[74..633]
TFRC - transferrin receptor (p90, CD71)	1.0E-69	[8..527]	[71..628]
gi\|16033408 - gi\|16033408\|gb\|AAL13231.1\|AF358651_1 leucine aminopeptidase precursor [Bacillus licheniformis]	2.0E-63	[76..510]	[33..444]
gi\|121491979, gi... - gi\|121636332\|ref\|YP_976555.1\| putative lipoprotein aminopeptidase lpqL [Mycobacterium bovis BCG str.... gi\|148821614, gi... - gi\|148821614\|ref\|YP_001286368.1\| lipoprotein aminopeptidase lpqL [Mycobacterium tuberculosis F11], g... gi\|255098386 - gi\|255098386\|ref\|ZP_05327864.1\| putative lipoprotein aminopeptidase [Mycobacterium tuberculosis KZN ... gi\|254817417 - gi\|254817417\|ref\|ZP_05222418.1\| putative lipoprotein aminopeptidase [Mycobacterium tuberculosis KZN ... gi\|254549364 - gi\|254549364\|ref\|ZP_05139811.1\| lipoprotein aminopeptidase lpqL [Mycobacterium tuberculosis '98-R604... gi\|253318845, gi... - gi\|253797342\|ref\|YP_003030343.1\| lipoprotein aminopeptidase lpqL [Mycobacterium tuberculosis KZN 143... gi\|124599828, gi... - gi\|81255723\|ref\|ZP_00880193.1\| COG2234: Predicted aminopeptidases [Mycobacterium tuberculosis C], gi... gi\|31791596, gi\|... - gi\|31791596\|ref\|NP_854089.1\| lipoprotein aminopeptidase LpqL [Mycobacterium bovis AF2122/97], gi\|316... LPQL_MYCTU - Probable lipoprotein aminopeptidase LpqL OS=Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) G... gi\|215409931 - gi\|215409931\|ref\|ZP_03418739.1\| lipoprotein aminopeptidase lpqL [Mycobacterium tuberculosis 94_M4241... gi\|254363382, gi... - gi\|254363382\|ref\|ZP_04979428.1\| lipoprotein aminopeptidase lpqL [Mycobacterium tuberculosis str. Haa... gi\|215425639 - gi\|215425639\|ref\|ZP_03423558.1\| lipoprotein aminopeptidase lpqL [Mycobacterium tuberculosis T92] gi\|148660183, gi... - gi\|167970766\|ref\|ZP_02553043.1\| lipoprotein aminopeptidase lpqL [Mycobacterium tuberculosis H37Ra], ... gi\|219556238 - gi\|219556238\|ref\|ZP_03535314.1\| lipoprotein aminopeptidase lpqL [Mycobacterium tuberculosis T17] gi\|224988804, gi... - gi\|224988804\|ref\|YP_002643491.1\| putative lipoprotein aminopeptidase [Mycobacterium bovis BCG str. T... gi\|7477880 - pir\|\|H70629 probable AMINOPEPTIDASE - Mycobacterium tuberculosis (strain H37RV)	2.0E-60	[74..518]	[47..494]

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Predicted Domain #1

Region A:
Residues: [1-56]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MHFSLKQLAV AAFYATNLGS AYVIPQFFQE AFQQEEPIEN YLPQLNDDDS SAVAAN

[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.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.816	a.44.1	Disulphide-bond formation facilitator (DSBA), insertion domain

Predicted Domain #2

Region A:
Residues: [57-138]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IPKPHIPYFM KPHVESEKLQ DKIKVDDLNA TAWDLYRLAN YSTPDYGHPT RVIGSKGHNK  60
   61 TMEYILNVFD DMQDYYDVSL QE

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	12.05
Match:	1de4C
Description:	Transferrin receptor ectodomain, C-terminal domain; Transferrin receptor ectodomain, apical domain; Transferrin receptor ectodomain, protease-like domain
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [139-224]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FEALSGKIIS FNLSDAETGK SFANTTAFAL SPPVDGFVGK LVEIPNLGCE EKDYASVVPP  60
   61 RHNEKQIALI ERGKCPFGDK SNLAGK

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	12.05
Match:	1de4C
Description:	Transferrin receptor ectodomain, C-terminal domain; Transferrin receptor ectodomain, apical domain; Transferrin receptor ectodomain, protease-like domain
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [225-537]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FGFTAVVIYD NEPKSKEGLH GTLGEPTKHT VATVGVPYKV GKKLIANIAL NIDYSLYFAM  60
   61 DSYVEFIKTQ NIIADTKHGD PDNIVALGAH SDSVEEGPGI NDDGSGTISL LNVAKQLTHF 120
  121 KINNKVRFAW WAAEEEGLLG SNFYAYNLTK EENSKIRVFM DYDMMASPNY EYEIYDANNK 180
  181 ENPKGSEELK NLYVDYYKAH HLNYTLVPFD GRSDYVGFIN NGIPAGGIAT GAEKNNVNNG 240
  241 KVLDRCYHQL CDDVSNLSWD AFITNTKLIA HSVATYADSF EGFPKRETQK HKEVDILNAQ 300
  301 QPQFKYRADF LII

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	379.218487
Match:	1cp7A_
Description:	Aminopeptidase
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