YRC Public Data Repository - Protein Structure Prediction

Protein:	NUP2
Organism:	Saccharomyces cerevisiae
Length:	720 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

[What does the above image mean?]

[Show Ginzu Version Information]

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 NUP2.

Description	E-value	Query Range	Subject Range
RBP2_MOUSE - E3 SUMO-protein ligase RanBP2 OS=Mus musculus GN=Ranbp2 PE=1 SV=1	2.0E-70	[205..717]	[1436..1981]
RGPD6, RGPD5, RGPD8 - RANBP2-like and GRIP domain containing 8, RANBP2-like and GRIP domain containing 6, RANBP2-like and ...	5.0E-68	[237..717]	[733..1168]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	2.0E-64	[205..717]	[452..997]
NUP2_YEAST - Nucleoporin NUP2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NUP2 PE=1 SV=2 NUP2 - Nucleoporin involved in nucleocytoplasmic transport, binds to either the nucleoplasmic or cytoplasmi...	8.0E-63	[1..720]	[1..720]
gi\|447739 - gi\|447739\|prf\|\|1915304A nylB upstream ORF	2.0E-62	[5..717]	[1380..2144]
RBP2_BOVIN - E3 SUMO-protein ligase RanBP2 (Fragment) OS=Bos taurus GN=RANBP2 PE=2 SV=2	8.0E-54	[160..719]	[303..905]

Back

Predicted Domain #1

Region A:
Residues: [1-149]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAKRVADAQI QRETYDSNES DDDVTPSTKV ASSAVMNRRK IAMPKRRMAF KPFGSAKSDE  60
   61 TKQASSFSFL NRADGTGEAQ VDNSPTTESN SRLKALNLQF KAKVDDLVLG KPLADLRPLF 120
  121 TRYELYIKNI LEAPVKSIEN PTQTKGNDA

[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: [150-273]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KPAKVEDVQK SSDSSSEDEV KVEGPKFTID AKPPISDSVF SFGPKKENRK KDESDSENDI  60
   61 EIKGPEFKFS GTVSSDVFKL NPSTDKNEKK TETNAKPFSF SSATSTTEQT KSKNPLSLTE 120
  121 ATKT

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	14.0
Match:	1m2vB
Description:	Sec24
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [274-279]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NVDNNS

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [505-585]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EDVKKPFSFG TSQPNNTPSF SFGKTTANLP ANSSTSPAPS IPSTGFKFSL PFEQKGSQTT  60
   61 TNDSKEESTT EATGNESQDA T

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	11.01
Match:	1l8mA
Description:	No description for 1l8mA was found.

Predicted Domain #4

Region A:
Residues: [280-352]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KAEASFTFGT KHAADSQNNK PSFVFGQAAA KPSLEKSSFT FGSTTIEKKN DENSTSNSKP  60
   61 EKSSDSNDSN PSF

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	11.01
Match:	1l8mA
Description:	No description for 1l8mA was found.

Predicted Domain #5

Region A:
Residues: [353-434]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SFSIPSKNTP DASKPSFSFG VPNSSKNETS KPVFSFGAAT PSAKEASQED DNNNVEKPSS  60
   61 KPAFNLISNA GTEKEKESKK DS

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	11.01
Match:	1l8mA
Description:	No description for 1l8mA was found.

Predicted functions:

Term	Confidence	Notes
binding	3.29080729281876	bayes_pls_golite062009
protein binding	2.12168271674167	bayes_pls_golite062009
transcription regulator activity	2.10584700564436	bayes_pls_golite062009
nucleic acid binding	1.85794418941003	bayes_pls_golite062009
DNA binding	1.77960272183811	bayes_pls_golite062009
cytoskeletal protein binding	1.57773829313464	bayes_pls_golite062009
actin binding	1.43502308486445	bayes_pls_golite062009
transporter activity	1.28986800087234	bayes_pls_golite062009
signal transducer activity	1.15625292719687	bayes_pls_golite062009
molecular transducer activity	1.15625292719687	bayes_pls_golite062009
Ran GTPase binding	1.07023555877478	bayes_pls_golite062009
RNA binding	0.970967965545589	bayes_pls_golite062009
substrate-specific transporter activity	0.79883446648737	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	0.719838770435905	bayes_pls_golite062009
receptor activity	0.369903612832044	bayes_pls_golite062009
hydrolase activity	0.354215977182915	bayes_pls_golite062009
protein domain specific binding	0.18356841109571	bayes_pls_golite062009
structural molecule activity	0.160152014803717	bayes_pls_golite062009
transmembrane receptor activity	0.159652062741581	bayes_pls_golite062009
pyrophosphatase activity	0.0611639610381174	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.0524559849408587	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.0498422520006935	bayes_pls_golite062009

Predicted Domain #6

Region A:
Residues: [435-504]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KPAFSFGISN GSESKDSDKP SLPSAVDGEN DKKEATKPAF SFGINTNTTK TADTKAPTFT  60
   61 FGSSALADNK

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	11.01
Match:	1l8mA
Description:	No description for 1l8mA was found.

Predicted Domain #7

Region A:
Residues: [586-720]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KVDATPEESK PINLQNGEED EVALFSQKAK LMTFNAETKS YDSRGVGEMK LLKKKDDPSK  60
   61 VRLLCRSDGM GNVLLNATVV DSFKYEPLAP GNDNLIKAPT VAADGKLVTY IVKFKQKEEG 120
  121 RSFTKAIEDA KKEMK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	134.190949
Match:	1rrpB_
Description:	Nuclear pore complex protein Nup358
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

Predicted functions: