YRC Public Data Repository - Protein Structure Prediction

Protein:	rad16
Organism:	Schizosaccharomyces pombe
Length:	892 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 rad16.

Description	E-value	Query Range	Subject Range
gi\|109487701 - gi\|109487701\|ref\|XP_222534.4\| PREDICTED: similar to excision repair cross-complementing rodent repai...	538.0	[0..8]	[890..15]
XPF_MOUSE - DNA repair endonuclease XPF OS=Mus musculus GN=Ercc4 PE=1 SV=3	534.0	[0..8]	[890..15]
ERCC4_CRIGR, XPF... - DNA repair endonuclease XPF OS=Cricetulus griseus GN=ERCC4 PE=2 SV=2, DNA repair endonuclease XPF - ...	532.0	[0..8]	[890..4]
gi\|86196512, gi\|... - gi\|86196512\|gb\|EAQ71150.1\| hypothetical protein MGCH7_ch7g557 [Magnaporthe grisea 70-15], gi\|3997067...	517.0	[0..3]	[891..13]
gi\|109127649 - gi\|109127649\|ref\|XP_001107209.1\| PREDICTED: excision repair cross-complementing rodent repair defici...	511.0	[0..8]	[890..15]
gi\|114661075 - gi\|114661075\|ref\|XP_510831.2\| PREDICTED: excision repair cross-complementing rodent repair deficienc...	510.0	[0..8]	[890..15]
ERCC4 - excision repair cross-complementing rodent repair deficiency, complementation group 4 gi\|182887847 - gi\|182887847\|gb\|AAI60102.1\| Excision repair cross-complementing rodent repair deficiency, complement...	508.0	[0..8]	[890..15]

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Predicted Domain #1

Region A:
Residues: [1-514]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 METKVHLPLA YQQQVFNELI EEDGLCVIAP GLSLLQIAAN VLSYFAVPGS LLLLVGANVD  60
   61 DIELIQHEME SHLEKKLITV NTETMSVDKR EKSYLEGGIF AITSRILVMD LLTKIIPTEK 120
  121 ITGIVLLHAD RVVSTGTVAF IMRLYRETNK TGFIKAFSDD PEQFLMGINA LSHCLRCLFL 180
  181 RHVFIYPRFH VVVAESLEKS PANVVELNVN LSDSQKTIQS CLLTCIESTM RELRRLNSAY 240
  241 LDMEDWNIES ALHRSFDVIV RRQLDSVWHR VSPKTKQLVG DLSTLKFLLS ALVCYDCVSF 300
  301 LKLLDTLVLS VNVSSYPSNA QPSPWLMLDA ANKMIRVARD RVYKESEGPN MDAIPILEEQ 360
  361 PKWSVLQDVL NEVCHETMLA DTDAETSNNS IMIMCADERT CLQLRDYLST VTYDNKDSLK 420
  421 NMNSKLVDYF QWREQYRKMS KSIKKPEPSK EREASNTTSR KGVPPSKRRR VRGGNNATSR 480
  481 TTSDNTDAND SFSRDLRLEK ILLSHLSKRY EPEV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	56.39794
Match:	1wp9A
Description:	Crystal structure of Pyrococcus furiosus Hef helicase domain
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [515-626]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GNDAFEVIDD FNSIYIYSYN GERDELVLNN LRPRYVIMFD SDPNFIRRVE VYKATYPKRS  60
   61 LRVYFMYYGG SIEEQKYLFS VRREKDSFSR LIKERSNMAI VLTADSERFE SQ

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.64
Match:	1wp9A
Description:	Crystal structure of Pyrococcus furiosus Hef helicase domain
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [627-892]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ESKFLRNVNT RIAGGGQLSI TNEKPRVRSL YLMFICIKTL KVIVDLREFR SSLPSILHGN  60
   61 NFSVIPCQLL VGDYILSPKI CVERKSIRDL IQSLSNGRLY SQCEAMTEYY EIPVLLIEFE 120
  121 QHQSFTSPPF SDLSSEIGKN DVQSKLVLLT LSFPNLRIVW SSSAYVTSII FQDLKAMEQE 180
  181 PDPASAASIG LEAGQDSTNT YNQAPLDLLM GLPYITMKNY RNVFYGGVKD IQEASETSER 240
  241 KWSELIGPEA GRRLYSFFRK QLKDYE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	39.0
Match:	2bgwA
Description:	XPF from Aeropyrum pernix, complex with DNA
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
single-stranded DNA specific endodeoxyribonuclease activity	12.5797089932289	bayes_pls_golite062009
endodeoxyribonuclease activity	7.65460057398582	bayes_pls_golite062009
deoxyribonuclease activity	6.8949486660401	bayes_pls_golite062009
endonuclease activity	6.81743235298471	bayes_pls_golite062009
four-way junction helicase activity	4.48421726286311	bayes_pls_golite062009
DNA helicase activity	4.45575761476577	bayes_pls_golite062009
DNA strand annealing activity	3.51692202399009	bayes_pls_golite062009
excinuclease ABC activity	3.48615352002265	bayes_pls_golite062009
single-stranded DNA binding	3.44605832131927	bayes_pls_golite062009
structure-specific DNA binding	3.37084035853131	bayes_pls_golite062009
damaged DNA binding	2.98078816242626	bayes_pls_golite062009
DNA binding	2.97855002479178	bayes_pls_golite062009
helicase activity	2.83648239124034	bayes_pls_golite062009
nucleic acid binding	2.79236389919005	bayes_pls_golite062009
nuclease activity	2.20113675721212	bayes_pls_golite062009
binding	2.17324322139334	bayes_pls_golite062009
hydrolase activity	2.07039693890326	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	1.69645042781713	bayes_pls_golite062009
double-stranded DNA binding	1.26255690081743	bayes_pls_golite062009
transposase activity	1.10140160488189	bayes_pls_golite062009
nucleoside-triphosphatase activity	1.05548921907953	bayes_pls_golite062009
pyrophosphatase activity	1.02983374615445	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	1.01049916010827	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	1.00920723797259	bayes_pls_golite062009
catalytic activity	0.816447099398022	bayes_pls_golite062009
protein binding	0.71091195096997	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: