YRC Public Data Repository - Protein Structure Prediction

Protein:	NOP7
Organism:	Saccharomyces cerevisiae
Length:	605 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 NOP7.

Description	E-value	Query Range	Subject Range
PES1 - pescadillo homolog 1, containing BRCT domain (zebrafish) gi\|168277928 - gi\|168277928\|dbj\|BAG10942.1\| pescadillo homolog 1 [synthetic construct]	0.0	[4..600]	[6..584]
gi\|55715986 - gb\|AAH86254.1\| Unknown (protein for MGC:98773) [Xenopus laevis] PESC_MOUSE - Pescadillo homolog OS=Mus musculus GN=Pes1 PE=1 SV=1	0.0	[4..600]	[6..580]
ppp1 - pescadillo-family BRCT domain protein PESC_SCHPO - Pescadillo homolog OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ppp1 PE=3 SV=1	0.0	[2..598]	[3..604]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[2..462]	[3..454]
PESC_YEAST - Pescadillo homolog OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NOP7 PE=1 SV=1 NOP7 - Component of several different pre-ribosomal particles; forms a complex with Ytm1p and Erb1p that is... gi\|190406877 - gi\|190406877\|gb\|EDV10144.1\| hypothetical protein SCRG_00914 [Saccharomyces cerevisiae RM11-1a] PESC_YEAS7 - Pescadillo homolog OS=Saccharomyces cerevisiae (strain YJM789) GN=NOP7 PE=3 SV=1	0.0	[1..605]	[1..605]
CG4364-PA - This gene is referred to in FlyBase by the symbol Dmel\CG4364 (CG4364, FBgn0032138). It is a protein...	0.0	[1..600]	[1..605]
gi\|15241421, gi\|... - gi\|7573301\|emb\|CAB87619.1\| pescadillo-like protein [Arabidopsis thaliana], gi\|15241421\|ref\|NP_196956...	0.0	[2..591]	[6..583]
PESC_LEIMA - Pescadillo homolog OS=Leishmania major GN=LmjF22.0030 PE=3 SV=1 gi\|76363762 - gi\|76363762\|ref\|XP_888589.1\| possible pescadillo homologue [Leishmania major]	0.0	[2..602]	[11..585]
gi\|9280056 - gi\|9280056\|dbj\|BAB01764.1\| pescadillo [Danio rerio]	8.0E-84	[4..178]	[6..180]

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Predicted Domain #1

Region A:
Residues: [1-241]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRIKKKNTRG NARNFITRSQ AVRKLQVSLA DFRRLCIFKG IYPREPRNKK KANKGSTAPT  60
   61 TFYYAKDIQY LMHEPVLAKF REHKTFARKL TRALGRGEVS SAKRLEENRD SYTLDHIIKE 120
  121 RYPSFPDAIR DIDDALNMLF LFSNLPSTNQ VSSKIINDAQ KICNQWLAYV AKERLVRKVF 180
  181 VSIKGVYYQA NIKGEEVRWL VPFKFPENIP SDVDFRIMLT FLEFYSTLLH FVLYKLYTDS 240
  241 G

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

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 #2

Region A:
Residues: [242-304]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LIYPPKLDLK KDKIISGLSS YILESRQEDS LLKLDPTEIE EDVKVESLDA STLKSALNAD  60
   61 EAN

[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	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.724	0.079	ribosomal large subunit biogenesis	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.809	0.079	ribosomal large subunit biogenesis	a.60.1	SAM/Pointed domain
View	Download	0.658	0.079	ribosomal large subunit biogenesis	d.68.6	DNA-binding protein Sso10b (AlbA)
View	Download	0.650	0.079	ribosomal large subunit biogenesis	d.58.23	Probable ACP-binding domain of malonyl-CoA ACP transacylase
View	Download	0.592	0.079	ribosomal large subunit biogenesis	a.4.1	Homeodomain-like
View	Download	0.570	0.079	ribosomal large subunit biogenesis	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.528	0.079	ribosomal large subunit biogenesis	a.4.1	Homeodomain-like
View	Download	0.510	0.079	ribosomal large subunit biogenesis	a.4.1	Homeodomain-like
View	Download	0.507	0.079	ribosomal large subunit biogenesis	a.44.1	Disulphide-bond formation facilitator (DSBA), insertion domain
View	Download	0.503	0.079	ribosomal large subunit biogenesis	a.46.2	Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain
View	Download	0.499	0.079	ribosomal large subunit biogenesis	a.60.3	C-terminal domain of RNA polymerase alpha subunit
View	Download	0.488	0.079	ribosomal large subunit biogenesis	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.469	0.079	ribosomal large subunit biogenesis	a.4.1	Homeodomain-like
View	Download	0.454	0.079	ribosomal large subunit biogenesis	a.159.2	FF domain
View	Download	0.442	0.079	ribosomal large subunit biogenesis	d.58.17	Metal-binding domain
View	Download	0.426	0.079	ribosomal large subunit biogenesis	a.60.1	SAM/Pointed domain
View	Download	0.417	0.079	ribosomal large subunit biogenesis	d.58.3	Protease propeptides/inhibitors
View	Download	0.406	0.079	ribosomal large subunit biogenesis	c.114.1	YchN-like
View	Download	0.398	0.079	ribosomal large subunit biogenesis	d.8.1	Urease, gamma-subunit
View	Download	0.394	0.079	ribosomal large subunit biogenesis	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.387	0.079	ribosomal large subunit biogenesis	d.58.17	Metal-binding domain
View	Download	0.382	0.079	ribosomal large subunit biogenesis	c.3.1	FAD/NAD(P)-binding domain
View	Download	0.372	0.079	ribosomal large subunit biogenesis	a.60.9	lambda integrase-like, N-terminal domain
View	Download	0.370	0.079	ribosomal large subunit biogenesis	a.64.1	Saposin
View	Download	0.358	0.079	ribosomal large subunit biogenesis	a.60.2	RuvA domain 2-like
View	Download	0.358	0.079	ribosomal large subunit biogenesis	d.58.17	Metal-binding domain
View	Download	0.350	0.079	ribosomal large subunit biogenesis	a.35.1	lambda repressor-like DNA-binding domains
View	Download	0.350	0.079	ribosomal large subunit biogenesis	a.4.1	Homeodomain-like
View	Download	0.345	0.079	ribosomal large subunit biogenesis	d.120.1	Cytochrome b5
View	Download	0.342	0.079	ribosomal large subunit biogenesis	a.118.13	Arp2/3 complex 16 kDa subunit ARPC5
View	Download	0.338	0.079	ribosomal large subunit biogenesis	d.58.49	YajQ-like
View	Download	0.322	0.079	ribosomal large subunit biogenesis	a.35.1	lambda repressor-like DNA-binding domains
View	Download	0.319	0.079	ribosomal large subunit biogenesis	a.28.3	Retrovirus capsid protein C-terminal domain
View	Download	0.318	0.079	ribosomal large subunit biogenesis	c.3.1	FAD/NAD(P)-binding domain
View	Download	0.307	0.079	ribosomal large subunit biogenesis	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.298	0.079	ribosomal large subunit biogenesis	d.58.17	Metal-binding domain
View	Download	0.293	0.079	ribosomal large subunit biogenesis	d.58.17	Metal-binding domain
View	Download	0.288	0.079	ribosomal large subunit biogenesis	a.60.2	RuvA domain 2-like
View	Download	0.287	0.079	ribosomal large subunit biogenesis	a.28.3	Retrovirus capsid protein C-terminal domain
View	Download	0.286	0.079	ribosomal large subunit biogenesis	a.4.1	Homeodomain-like
View	Download	0.283	0.079	ribosomal large subunit biogenesis	a.56.1	CO dehydrogenase ISP C-domain like
View	Download	0.282	0.079	ribosomal large subunit biogenesis	d.58.36	Sulfite reductase, domains 1 and 3
View	Download	0.281	0.079	ribosomal large subunit biogenesis	a.4.13	Sigma3 and sigma4 domains of RNA polymerase sigma factors
View	Download	0.273	0.079	ribosomal large subunit biogenesis	a.144.2	Ribosomal protein L20
View	Download	0.273	0.079	ribosomal large subunit biogenesis	a.4.13	Sigma3 and sigma4 domains of RNA polymerase sigma factors
View	Download	0.272	0.079	ribosomal large subunit biogenesis	a.4.13	Sigma3 and sigma4 domains of RNA polymerase sigma factors
View	Download	0.269	0.079	ribosomal large subunit biogenesis	a.36.1	Signal peptide-binding domain
View	Download	0.269	0.079	ribosomal large subunit biogenesis	a.60.2	RuvA domain 2-like
View	Download	0.268	0.079	ribosomal large subunit biogenesis	a.56.1	CO dehydrogenase ISP C-domain like
View	Download	0.265	0.079	ribosomal large subunit biogenesis	a.60.3	C-terminal domain of RNA polymerase alpha subunit
View	Download	0.260	0.079	ribosomal large subunit biogenesis	d.58.7	RNA-binding domain, RBD
View	Download	0.256	0.079	ribosomal large subunit biogenesis	a.3.1	Cytochrome c
View	Download	0.254	0.079	ribosomal large subunit biogenesis	a.60.6	DNA polymerase beta, N-terminal domain-like
View	Download	0.247	0.079	ribosomal large subunit biogenesis	a.4.1	Homeodomain-like
View	Download	0.246	0.079	ribosomal large subunit biogenesis	c.47.1	Thioredoxin-like
View	Download	0.246	0.079	ribosomal large subunit biogenesis	a.159.2	FF domain
View	Download	0.245	0.079	ribosomal large subunit biogenesis	a.60.3	C-terminal domain of RNA polymerase alpha subunit
View	Download	0.244	0.079	ribosomal large subunit biogenesis	c.55.4	Translational machinery components
View	Download	0.244	0.079	ribosomal large subunit biogenesis	d.58.1	4Fe-4S ferredoxins
View	Download	0.232	0.079	ribosomal large subunit biogenesis	d.45.1	ClpS-like
View	Download	0.232	0.079	ribosomal large subunit biogenesis	a.61.1	Retroviral matrix proteins
View	Download	0.231	0.079	ribosomal large subunit biogenesis	d.58.44	Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains
View	Download	0.230	0.079	ribosomal large subunit biogenesis	a.60.11	Hypothetical protein YjbJ
View	Download	0.228	0.079	ribosomal large subunit biogenesis	a.4.1	Homeodomain-like
View	Download	0.226	0.079	ribosomal large subunit biogenesis	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.226	0.079	ribosomal large subunit biogenesis	a.60.1	SAM/Pointed domain
View	Download	0.224	0.079	ribosomal large subunit biogenesis	a.42.1	MDM2
View	Download	0.223	0.079	ribosomal large subunit biogenesis	a.163.1	Crustacean CHH/MIH/GIH neurohormone
View	Download	0.222	0.079	ribosomal large subunit biogenesis	c.3.1	FAD/NAD(P)-binding domain
View	Download	0.220	0.079	ribosomal large subunit biogenesis	a.60.9	lambda integrase-like, N-terminal domain
View	Download	0.216	0.079	ribosomal large subunit biogenesis	a.126.1	Serum albumin-like
View	Download	0.214	0.079	ribosomal large subunit biogenesis	a.159.2	FF domain
View	Download	0.207	0.079	ribosomal large subunit biogenesis	a.5.1	DNA helicase RuvA subunit, C-terminal domain
View	Download	0.203	0.079	ribosomal large subunit biogenesis	c.3.1	FAD/NAD(P)-binding domain

Predicted Domain #3

Region A:
Residues: [305-457]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TDETEKEEEQ EKKQEKEQEK EQNEETELDT FEDNNKNKGD ILIQPSKYDS PVASLFSAFV  60
   61 FYVSREVPID ILEFLILSCG GNVISEAAMD QIENKKDIDM SKVTHQIVDR PVLKNKVAGR 120
  121 TYIQPQWIFD CINKGELVPA NKYLPGEALP PHL

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	12.823909
Match:	PF00533
Description:	BRCA1 C Terminus (BRCT) domain

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 #4

Region A:
Residues: [458-605]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SPWGDAIGYD PTAPVEEGEE EESESESESE DQVEEEDQEV VAGEEDDDDD EELQAQKELE  60
   61 LEAQGIKYSE TSEADKDVNK SKNKKRKVDE EEEEKKLKMI MMSNKQKKLY KKMKYSNAKK 120
  121 EEQAENLKKK KKQIAKQKAK LNKLDSKK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	3.30103
Match:	1dg3A_
Description:	Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain; Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
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