YRC Public Data Repository - Protein Structure Prediction

Protein:	CDC8
Organism:	Saccharomyces cerevisiae
Length:	216 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 CDC8.

Description	E-value	Query Range	Subject Range
gi\|172986 - gi\|172986\|gb\|AAA35158.1\| thymidylate kinase gi\|207343848 - gi\|207343848\|gb\|EDZ71181.1\| YJR057Wp-like protein [Saccharomyces cerevisiae AWRI1631] gi\|190409534 - gi\|190409534\|gb\|EDV12799.1\| thymidylate kinase [Saccharomyces cerevisiae RM11-1a]	1.0E-46	[1..216]	[1..216]
KTHY_PYRFU - Probable thymidylate kinase OS=Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) G... KTHY_PYRFU - Probable thymidylate kinase OS=Pyrococcus furiosus GN=tmk PE=3 SV=1	1.0E-34	[2..203]	[1..202]
gi\|16975316 - gi\|16975316\|pdb\|1E9F\|A Chain A, Mutant Human Thymidylate Kinase Complexed With Tmp And Adp	1.0E-34	[4..208]	[8..212]
KTHY_PYRAB - Probable thymidylate kinase OS=Pyrococcus abyssi (strain GE5 / Orsay) GN=tmk PE=3 SV=1 KTHY_PYRAB - Probable thymidylate kinase OS=Pyrococcus abyssi GN=tmk PE=3 SV=1	2.0E-34	[4..202]	[2..200]
KTHY_RHIME - Thymidylate kinase OS=Rhizobium meliloti GN=tmk PE=3 SV=1 KTHY_RHIME - Thymidylate kinase OS=Rhizobium meliloti (strain 1021) GN=tmk PE=3 SV=1	2.0E-34	[2..204]	[11..219]
gi\|1246361 - gi\|1246361\|gb\|AAA93511.1\| thymidine:thymidylate kinase:zeocin resistance fusion protein [Cloning vec...	3.0E-34	[1..206]	[214..425]
gi\|1246364 - gi\|1246364\|gb\|AAA93513.1\| thymidylate:zeocin resistance protein:NDP kinase fusion protein [Cloning v...	3.0E-34	[2..206]	[1..211]
KTHY_CAUCR - Thymidylate kinase OS=Caulobacter crescentus GN=tmk PE=3 SV=1 KTHY_CAUCR - Thymidylate kinase OS=Caulobacter crescentus (strain ATCC 19089 / CB15) GN=tmk PE=3 SV=1 gi\|220964009, gi... - gi\|221234837\|ref\|YP_002517273.1\| thymidylate kinase [Caulobacter crescentus NA1000], gi\|220964009\|gb...	6.0E-34	[2..200]	[1..202]

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Predicted Domain #1

Region A:
Residues: [1-216]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MMGRGKLILI EGLDRTGKTT QCNILYKKLQ PNCKLLKFPE RSTRIGGLIN EYLTDDSFQL  60
   61 SDQAIHLLFS ANRWEIVDKI KKDLLEGKNI VMDRYVYSGV AYSAAKGTNG MDLDWCLQPD 120
  121 VGLLKPDLTL FLSTQDVDNN AEKSGFGDER YETVKFQEKV KQTFMKLLDK EIRKGDESIT 180
  181 IVDVTNKGIQ EVEALIWQIV EPVLSTHIDH DKFSFF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1257.0
Match:	1tmkA_
Description:	Thymidylate kinase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nucleobase, nucleoside, nucleotide kinase activity	3.66392587433723	bayes_pls_golite062009
hydrogen ion transporting ATP synthase activity, rotational mechanism	3.01286198424677	bayes_pls_golite062009
nucleotide kinase activity	2.24094813695083	bayes_pls_golite062009
kinase activity	2.0779386406753	bayes_pls_golite062009
hydrogen ion transmembrane transporter activity	2.06460241490722	bayes_pls_golite062009
binding	2.05253348982328	bayes_pls_golite062009
substrate-specific transporter activity	2.0114051513686	bayes_pls_golite062009
phosphotransferase activity, phosphate group as acceptor	1.96697952975573	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	1.92626167278464	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	1.9136419736217	bayes_pls_golite062009
ion transmembrane transporter activity	1.6854386921174	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	1.64467072658718	bayes_pls_golite062009
cation transmembrane transporter activity	1.5008821138859	bayes_pls_golite062009
nucleic acid binding	1.49633029954726	bayes_pls_golite062009
pyrophosphatase activity	1.49611313354225	bayes_pls_golite062009
DNA-dependent ATPase activity	1.2155186842031	bayes_pls_golite062009
helicase activity	1.16085745407703	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
DNA binding	0.967303417236485	bayes_pls_golite062009
transcription regulator activity	0.748437190903548	bayes_pls_golite062009
DNA helicase activity	0.72881469450553	bayes_pls_golite062009
structure-specific DNA binding	0.720649395550746	bayes_pls_golite062009
ATP-dependent helicase activity	0.59513742813869	bayes_pls_golite062009
purine NTP-dependent helicase activity	0.59513742813869	bayes_pls_golite062009
double-stranded DNA binding	0.58862275163252	bayes_pls_golite062009
adenylate kinase activity	0.447752711852745	bayes_pls_golite062009
CTP synthase activity	0.435702031552231	bayes_pls_golite062009
protein-DNA loading ATPase activity	0.3625050107782	bayes_pls_golite062009
DNA clamp loader activity	0.27925703205288	bayes_pls_golite062009
ATP-dependent DNA helicase activity	0.22150712609541	bayes_pls_golite062009
nucleotide binding	0.114848452385726	bayes_pls_golite062009
purine nucleotide binding	0.10713474095071	bayes_pls_golite062009
purine ribonucleotide binding	0.0916519414118148	bayes_pls_golite062009
ribonucleotide binding	0.0915913646217636	bayes_pls_golite062009
DNA polymerase activity	4.95561462330096E-4	bayes_pls_golite062009

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: