YRC Public Data Repository - Protein Structure Prediction

Protein:	CIC1
Organism:	Saccharomyces cerevisiae
Length:	376 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 CIC1.

Description	E-value	Query Range	Subject Range
CIC1_YEAST - Proteasome-interacting protein CIC1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=CIC1... gi\|151943998 - gi\|151943998\|gb\|EDN62291.1\| core interacting component [Saccharomyces cerevisiae YJM789] CIC1 - Essential protein that interacts with proteasome components and has a potential role in proteasome s...	2.0E-86	[1..376]	[1..376]
RK1_CYAPA - 50S ribosomal protein L1, cyanelle OS=Cyanophora paradoxa GN=rpl1 PE=3 SV=1	3.0E-54	[57..299]	[2..232]
RL1_DEIRA - 50S ribosomal protein L1 OS=Deinococcus radiodurans GN=rplA PE=1 SV=1 RL1_DEIRA - 50S ribosomal protein L1 OS=Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG...	3.0E-54	[62..291]	[6..225]
RL1_THET2 - 50S ribosomal protein L1 OS=Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) GN=rplA PE=... RL1_THETH - 50S ribosomal protein L1 OS=Thermus thermophilus GN=rplA PE=1 SV=3 gi\|2120598 - pir\|\|S66577 ribosomal protein L1 - Thermus aquaticus (fragment)	5.0E-54	[64..291]	[9..225]
gi\|28373723\|pdb\|... - Chain d, Structure Of The E. Coli Ribosomal Termination Complex With Release Factor 2 gi\|66361020\|pdb\|... - Chain D, Crystal Structure Of 70s Ribosome With Thrs Operator And Trnas. Large Subunit. The Coordina... gi\|14278034 - gi\|14278034\|pdb\|1GIY\|D Chain D, Crystal Structure Of The Ribosome At 5.5 A Resolution. This File, 1g... gi\|28373723 - gi\|28373723\|pdb\|1ML5\|DD Chain d, Structure Of The E. Coli Ribosomal Termination Complex With Release... gi\|14278034, gi\|... - gi\|66361020\|pdb\|1YL3\|D Chain D, Crystal Structure Of 70s Ribosome With Thrs Operator And Trnas. Larg...	6.0E-54	[64..291]	[8..224]
gi\|9957210 - gi\|9957210\|gb\|AAG09267.1\| L1 [EDTA-degrading bacterium BNC1]	5.0E-53	[58..295]	[3..228]
RL1_RHIME - 50S ribosomal protein L1 OS=Rhizobium meliloti GN=rplA PE=3 SV=1 RL1_RHIME - 50S ribosomal protein L1 OS=Rhizobium meliloti (strain 1021) GN=rplA PE=3 SV=1	6.0E-53	[58..295]	[3..228]
RL1_NOSS1 - 50S ribosomal protein L1 OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=rplA PE=3 SV=1 gi\|25294935 - pir\|\|AE2468 50S ribosomal protein L1 [imported] - Nostoc sp. (strain PCC 7120)	9.0E-52	[56..294]	[2..227]

Back

Predicted Domain #1

Region A:
Residues: [1-130]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAKKSNSKKS TPVSTPSKEK KKVIEKKSST AIPRERVIKA VNELIKFTSK PQDENNEEGN  60
   61 NGKKNLLEDD EEELKKDLQL IVVNNKSFTG TSKSFKLKLL NVKHSFYKPW KEASATAVKD 120
  121 FKVLLILKDS

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [219-311]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LTTLTNNIKK VYMNQLPVKL PRGTTLNVHL GNLEWLRPEE FVDNVELISE QLIKAYQIRS  60
   61 IFIKTNRSPV LPLYYNQDVL DELEAKKDKI EET

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	54.69897
Match:	1eg0N_
Description:	70S ribosome functional complex
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [131-218]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DIKKVSEDDL FDQLDSEGIK VDEIICGKDL KTVYKAYEAR NAFISQFSLI LADDSIVTSL  60
   61 PKLMGGKAYN KVETTPISIR THANKEFS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	54.69897
Match:	1eg0N_
Description:	70S ribosome functional complex
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [312-376]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HEDDMVTIDG VQVHLSTFNK GLMEIANPSE LGSIFSKQIN NAKKRSSSEL EKESSESEAV  60
   61 KKAKS

[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.

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