YRC Public Data Repository - Protein Structure Prediction

Protein:	rfc5
Organism:	Schizosaccharomyces pombe
Length:	358 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[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 rfc5.

Description	E-value	Query Range	Subject Range
gi\|91783455, gi\|... - gi\|91783455\|ref\|YP_558661.1\| DNA-directed DNA polymerase [Burkholderia xenovorans LB400], gi\|9168740...	205.0	[0..3]	[358..6]
gi\|109497454 - gi\|109497454\|ref\|XP_001080107.1\| PREDICTED: similar to Activator 1 36 kDa subunit (Replication facto...	201.0	[0..1]	[346..188]
gi\|76578045, gi\|... - gi\|76808592\|ref\|YP_333768.1\| DNA polymerase III subunits gamma and tau [Burkholderia pseudomallei 17... gi\|67684822, gi\|... - gi\|90293645\|ref\|ZP_01213245.1\| hypothetical protein Bpse17_02001772 [Burkholderia pseudomallei 1710a...	200.0	[0..3]	[358..6]
gi\|77967342, gi\|... - gi\|78066597\|ref\|YP_369366.1\| DNA polymerase III subunits gamma and tau [Burkholderia sp. 383], gi\|77...	200.0	[0..3]	[358..6]
gi\|126454158, gi... - gi\|126454158\|ref\|YP_001066508.1\| DNA polymerase III subunits gamma and tau [Burkholderia pseudomalle... gi\|161355094, gi... - gi\|242316585\|ref\|ZP_04815601.1\| DNA polymerase III, subunits gamma and tau [Burkholderia pseudomalle...	200.0	[0..3]	[358..6]
gi\|52209546, gi\|... - gi\|53719132\|ref\|YP_108118.1\| DNA polymerase III subunits gamma and tau [Burkholderia pseudomallei K9...	200.0	[0..3]	[358..6]
gi\|121227738, gi... - gi\|84522580\|ref\|ZP_01009716.1\| COG2812: DNA polymerase III, gamma/tau subunits [Burkholderia mallei ... gi\|85064596 - gi\|85064596\|ref\|ZP_01025449.1\| COG2812: DNA polymerase III, gamma/tau subunits [Burkholderia mallei ... gi\|160699435, gi... - gi\|254178396\|ref\|ZP_04885051.1\| DNA polymerase III, subunits gamma and tau [Burkholderia mallei ATCC... gi\|52426996, gi\|... - gi\|53723573\|ref\|YP_103021.1\| DNA polymerase III subunits gamma and tau [Burkholderia mallei ATCC 233... gi\|126448303, gi... - gi\|126448303\|ref\|YP_001080677.1\| DNA polymerase III subunits gamma and tau [Burkholderia mallei NCTC... gi\|124294574, gi... - gi\|124386554\|ref\|YP_001026054.1\| DNA polymerase III subunits gamma and tau [Burkholderia mallei NCTC... gi\|67636480, gi\|... - gi\|67636480\|ref\|ZP_00435425.1\| COG2812: DNA polymerase III, gamma/tau subunits [Burkholderia mallei ...	200.0	[0..3]	[358..6]
gi\|41393079, gi\|... - gi\|41393079\|ref\|NP_958865.1\| replication factor C (activator 1) 3 [Danio rerio], gi\|27503431\|gb\|AAH4...	200.0	[0..2]	[349..3]
gi\|120537910, gi... - gi\|34097966\|dbj\|BAC82198.1\| replication factor C p37 subunit [Xenopus laevis], gi\|147905139\|ref\|NP_0...	199.0	[0..1]	[344..37]
gi\|83720172, gi\|... - gi\|83720172\|ref\|YP_442740.1\| DNA polymerase III subunits gamma and tau [Burkholderia thailandensis E...	199.0	[0..3]	[358..6]

Back

Predicted Domain #1

Region A:
Residues: [1-358]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLWLDQYRPK TLASLDYHKQ LSERLISLSS TNEFPHLLVY GPSGAGKKTR VVAILRELYG  60
   61 PGSEKLKIDQ RTFLTPSSKK LQINIVSSLH HLEITPSDVG NYDRVIMQEL LKDVAQSAQV 120
  121 DLQAKKIFKV VVINVADELT RDAQAALRRT MEKYSNNIRL ILIANSTSKI IEPIRSRTLM 180
  181 VRVAAPTPEE IILVMSKILT AQGLEAPDSL LNNIANNCDR NLRKAILLLE TVHAKSPGNK 240
  241 QLIDTGAQLP LPDWQTFIQQ VGDSMLQEQS PARILAVRSM LYDLLSHCIP PTTILKELLS 300
  301 FFLSKVDTKL HPYLIQAAAN YEHRTRMGNK SIFHLEAFVA YFMKVYAMLQ LGMELPSY

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	38.09691
Match:	1sxjE
Description:	Crystal Structure of the Eukaryotic Clamp Loader (Replication Factor C, RFC) Bound to the DNA Sliding Clamp (Proliferating Cell Nuclear Antigen, PCNA)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA clamp loader activity	6.51495346697904	bayes_pls_golite062009
protein-DNA loading ATPase activity	6.40748863504898	bayes_pls_golite062009
mismatched DNA binding	2.51625633651862	bayes_pls_golite062009
DNA helicase activity	2.2817164193758	bayes_pls_golite062009
pyrophosphatase activity	2.23646936731119	bayes_pls_golite062009
ATP-dependent DNA helicase activity	1.88455339138556	bayes_pls_golite062009
	1.85506769032946	bayes_pls_golite062009
helicase activity	1.70242731830224	bayes_pls_golite062009
guanine/thymine mispair binding	1.69026972999845	bayes_pls_golite062009
DNA insertion or deletion binding	1.68890613599528	bayes_pls_golite062009
binding	1.62860302498201	bayes_pls_golite062009
DNA replication origin binding	1.62491387774159	bayes_pls_golite062009
nucleic acid binding	1.49633029954726	bayes_pls_golite062009
catalytic activity	1.32370671504792	bayes_pls_golite062009
structure-specific DNA binding	1.2539059700735	bayes_pls_golite062009
DNA-dependent ATPase activity	1.2537888487362	bayes_pls_golite062009
purine NTP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
ATP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
motor activity	1.14667913749579	bayes_pls_golite062009
microtubule motor activity	1.1277447806079	bayes_pls_golite062009
double-stranded DNA binding	1.117585097627	bayes_pls_golite062009
DNA-directed DNA polymerase activity	0.971476020912368	bayes_pls_golite062009
DNA binding	0.967303417236485	bayes_pls_golite062009
DNA polymerase activity	0.928091843881235	bayes_pls_golite062009
transcription regulator activity	0.748437190903548	bayes_pls_golite062009
single base insertion or deletion binding	0.629563765934841	bayes_pls_golite062009
single-stranded DNA binding	0.568457189190858	bayes_pls_golite062009
cytoskeletal protein binding	0.500462538667228	bayes_pls_golite062009
protein binding	0.324679002546113	bayes_pls_golite062009
DNA strand annealing activity	0.283577486331079	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.248432446853676	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.217252531553173	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.215962398124297	bayes_pls_golite062009
structural constituent of ribosome	0.089234257580272	bayes_pls_golite062009
3'-5' DNA helicase activity	0.0769112340058804	bayes_pls_golite062009
ATPase activity	0.0740243885501273	bayes_pls_golite062009
lysine N-acetyltransferase activity	0.0320943071400439	bayes_pls_golite062009
histone acetyltransferase activity	0.0320943071400439	bayes_pls_golite062009
double-strand/single-strand DNA junction binding	0.0136229525922795	bayes_pls_golite062009
actin binding	0.00482938540552702	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: