YRC Public Data Repository - Protein Structure Prediction

Protein:	CDC53
Organism:	Saccharomyces cerevisiae
Length:	815 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 CDC53.

Description	E-value	Query Range	Subject Range
CDC53_YEAST - Cell division control protein 53 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=CDC53 P... CDC53 - Cullin, structural protein of SCF complexes (which also contain Skp1p, Cdc34p, Hrt1p and an F-box pr...	0.0	[1..815]	[1..815]
CUL1 - cullin 1 CUL1_PONPY - Cullin-1 - Pongo pygmaeus (Orangutan) CUL1_PONAB - Cullin-1 OS=Pongo abelii GN=CUL1 PE=2 SV=1 gi\|114616601, gi... - gi\|114616611\|ref\|XP_001165597.1\| PREDICTED: cullin 1 isoform 12 [Pan troglodytes], gi\|114616609\|ref\|...	0.0	[3..815]	[9..776]
gi\|224044991 - gi\|224044991\|ref\|XP_002198372.1\| PREDICTED: hypothetical protein [Taeniopygia guttata] gi\|363730292\|ref... - PREDICTED: cullin-1 [Gallus gallus] gi\|542154239\|ref... - PREDICTED: cullin-1 [Zonotrichia albicollis] CUL1_MOUSE - Cullin-1 OS=Mus musculus GN=Cul1 PE=1 SV=1 gi\|62647154, gi\|... - gi\|62647154\|ref\|XP_342680.2\| PREDICTED: similar to Cullin-1 (CUL-1) [Rattus norvegicus], gi\|17184707...	0.0	[3..815]	[9..776]
gi\|66801663, gi\|... - gi\|66801663\|ref\|XP_629756.1\| cullin [Dictyostelium discoideum AX4], gi\|60463149\|gb\|EAL61342.1\| culli... CUL1_DICDI - Cullin-1 OS=Dictyostelium discoideum GN=culA PE=1 SV=1	0.0	[1..815]	[3..770]
CUL1_ARATH - Cullin-1 OS=Arabidopsis thaliana GN=CUL1 PE=1 SV=1	0.0	[5..815]	[2..738]
gi\|14091836 - gi\|14091836\|gb\|AAK53839.1\|AC011806_16 Putative cullin [Oryza sativa] gi\|125570399 - gi\|125570399\|gb\|EAZ11914.1\| hypothetical protein OsJ_001739 [Oryza sativa (japonica cultivar-group)]	0.0	[1..815]	[1..750]
cul1 - cullin 1 CUL1_SCHPO - Cullin-1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=cul1 PE=1 SV=1	0.0	[3..815]	[12..767]
gi\|19577357 - gi\|19577357\|emb\|CAD28438.1\| putative scf complex protein [Aspergillus fumigatus]	0.0	[32..815]	[5..747]

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Predicted Domain #1

Region A:
Residues: [1-95]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSETLPRSDD LEATWNFIEP GINQILGNEK NQASTSKRVY KILSPTMYME VYTAIYNYCV  60
   61 NKSRSSGHFS TDSRTGQSTI LVGSEIYEKL KNYLK

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [122-155]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IGAIFLNHAF DYMNRYWVQK ERSDGKRHIF DVNT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2110.0
Match:	1ldjA_
Description:	Anaphase promoting complex (APC); Cullin homolog 1, Cul-1; Cullin homolog 1, cul-1
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ubiquitin-protein ligase activity	9.95820721075934	bayes_pls_golite062009
small conjugating protein ligase activity	9.63704265478699	bayes_pls_golite062009
acid-amino acid ligase activity	8.59660059921406	bayes_pls_golite062009
ligase activity, forming carbon-nitrogen bonds	7.32718329074249	bayes_pls_golite062009
vasopressin activated calcium mobilizing receptor activity	6.69190468636718	bayes_pls_golite062009
transcription regulator activity	4.76121492612224	bayes_pls_golite062009
ligase activity	4.08678005991666	bayes_pls_golite062009
transcription factor activity	3.7855017556511	bayes_pls_golite062009
binding	2.45185337633142	bayes_pls_golite062009
transcription repressor activity	2.39237599101586	bayes_pls_golite062009
protein binding	2.34145982999922	bayes_pls_golite062009
transcription activator activity	2.05043065144612	bayes_pls_golite062009
nucleic acid binding	1.54797684894025	bayes_pls_golite062009
DNA binding	1.42215436462553	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.23862224095769	bayes_pls_golite062009
transporter activity	0.891050405674973	bayes_pls_golite062009
transmembrane transporter activity	0.648150681919233	bayes_pls_golite062009
transcription factor binding	0.612315945412079	bayes_pls_golite062009
substrate-specific transporter activity	0.368917395770011	bayes_pls_golite062009
catalytic activity	0.351553138703956	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.249771970501337	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	0.146182977030285	bayes_pls_golite062009
hydrolase activity	0.140191206949582	bayes_pls_golite062009
structure-specific DNA binding	0.117670813298683	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	0.107671044044222	bayes_pls_golite062009
transferase activity	0.064832527337659	bayes_pls_golite062009
specific transcriptional repressor activity	0.0565989703351002	bayes_pls_golite062009
sequence-specific DNA binding	0.0102780098866235	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [96-121]

      1          11         21         31         41         51         
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    1 NYILNFKQSN SETFLQFYVK RWKRFT

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [156-297]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LCLMTWKEVM FDPSKDVLIN ELLDQVTLGR EGQIIQRSNI STAIKSLVAL GIDPQDLKKL  60
   61 NLNVYIQVFE KPFLKKTQEY YTQYTNDYLE KHSVTEYIFE AHEIIKREEK AMTIYWDDHT 120
  121 KKPLSMALNK VLITDHIEKL EN

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [311-324]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ITSLYALIRR DFTL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2110.0
Match:	1ldjA_
Description:	Anaphase promoting complex (APC); Cullin homolog 1, Cul-1; Cullin homolog 1, cul-1
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [298-310]

      1          11         21         31         41         51         
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    1 EFVVLLDARD IEK

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [325-526]

      1          11         21         31         41         51         
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    1 IPRMASVFEN YVKKTGENEI SSLLAMHKHN IMKNENANPK KLALMTAHSL SPKDYIKKLL  60
   61 EVHDIFSKIF NESFPDDIPL AKALDNACGA FININEFALP AGSPKSATSK TSEMLAKYSD 120
  121 ILLKKATKPE VASDMSDEDI ITIFKYLTDK DAFETHYRRL FAKRLIHGTS TSAEDEENII 180
  181 QRLQAANSME YTGKITKMFQ DI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2110.0
Match:	1ldjA_
Description:	Anaphase promoting complex (APC); Cullin homolog 1, Cul-1; Cullin homolog 1, cul-1
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [527-602]

      1          11         21         31         41         51         
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    1 RLSKILEDDF AVALKNEPDY SKAKYPDLQP FVLAENMWPF SYQEVEFKLP KELVPSHEKL  60
   61 KESYSQKHNG RILKWL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2110.0
Match:	1ldjA_
Description:	Anaphase promoting complex (APC); Cullin homolog 1, Cul-1; Cullin homolog 1, cul-1
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [603-742]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 WPLCRGELKA DIGKPGRMPF NFTVTLFQMA ILLLYNDADV LTLENIQEGT SLTIQHIAAA  60
   61 MVPFIKFKLI QQVPPGLDAL VKPETQFKLS RPYKALKTNI NFASGVKNDI LQSLSGGGHD 120
  121 NHGNKLGNKR LTEDERIEKE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2110.0
Match:	1ldjA_
Description:	Anaphase promoting complex (APC); Cullin homolog 1, Cul-1; Cullin homolog 1, cul-1
Matching Structure (courtesy of the PDB):

Predicted Domain #6

Region A:
Residues: [743-815]

      1          11         21         31         41         51         
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    1 LNTERQIFLE ACIVRIMKAK RNLPHTTLVN ECIAQSHQRF NAKVSMVKRA IDSLIQKGYL  60
   61 QRGDDGESYA YLA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2110.0
Match:	1ldjA_
Description:	Anaphase promoting complex (APC); Cullin homolog 1, Cul-1; Cullin homolog 1, cul-1
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: