YRC Public Data Repository - Protein Structure Prediction

Protein:	lsd1
Organism:	Schizosaccharomyces pombe
Length:	1000 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 lsd1.

Description	E-value	Query Range	Subject Range
LSD2_SCHPO - Lysine-specific histone demethylase 2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=lsd2... lsd2 - histone demethylase SWIRM2	431.0	[0..6]	[983..260]
gi\|42553873, gi\|... - gi\|46124997\|ref\|XP_387052.1\| hypothetical protein FG06876.1 [Gibberella zeae PH-1], gi\|42553873\|gb\|E...	420.0	[0..4]	[967..858]
gi\|39965127, gi\|... - gi\|39965127\|ref\|XP_365070.1\| hypothetical protein MGG_09915 [Magnaporthe grisea 70-15], gb\|EAA46694....	408.0	[0..4]	[983..115]
gi\|83764623 - gi\|83764623\|dbj\|BAE54767.1\| unnamed protein product [Aspergillus oryzae] gi\|169764595 - gi\|169764595\|ref\|XP_001816769.1\| hypothetical protein [Aspergillus oryzae RIB40] gi\|220690775, gi... - gi\|238504144\|ref\|XP_002383304.1\| lysine-specific histone demethylase Aof2, putative [Aspergillus fla...	383.0	[0..80]	[937..120]
gi\|85091419 - gi\|85091419\|ref\|XP_958892.1\| hypothetical protein NCU09120 [Neurospora crassa OR74A] gi\|32422137, gi\|... - gi\|32422137\|ref\|XP_331512.1\| hypothetical protein [Neurospora crassa], gi\|28920283\|gb\|EAA29656.1\| co...	379.0	[0..8]	[936..285]
gi\|49092512, gi\|... - gi\|67526245\|ref\|XP_661184.1\| hypothetical protein AN3580.2 [Aspergillus nidulans FGSC A4], ref\|XP_40...	377.0	[0..83]	[945..92]
gi\|70993368, gi\|... - gi\|70993368\|ref\|XP_751531.1\| lysine-specific histone demethylase Aof2 [Aspergillus fumigatus Af293],...	377.0	[0..9]	[936..56]
gi\|116181978, gi... - gi\|88185914\|gb\|EAQ93382.1\| hypothetical protein CHGG_01617 [Chaetomium globosum CBS 148.51], gi\|1161...	370.0	[0..25]	[911..5]
gi\|115389710, gi... - gi\|115389710\|ref\|XP_001212360.1\| conserved hypothetical protein [Aspergillus terreus NIH2624], gi\|11...	368.0	[0..136]	[936..106]
LDL1_ARATH - Lysine-specific histone demethylase 1 homolog 1 OS=Arabidopsis thaliana GN=LDL1 PE=1 SV=1	366.0	[0..7]	[774..36]

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Predicted Domain #1

Region A:
Residues: [1-106]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MMDLSSKDAL SDVLKDTHAQ SSDPSLWAIF GHQSSDNVHE GGNESVSVEQ EIFDLSQLSE  60
   61 RPVSETVSKA SIPTNINGLS QVKPSALEKS QEVLSLQKLP IKGRRP

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [107-235]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AGRRGRPALN TSNSLERNGT RYVSAEAPIS VKSSIPAIPR VTFERLCYES AIASNLPPNA  60
   61 LSPLEAEMLS EILENPTWLS LYLSIRNGIC YLWHRNPTLY VSFNEALGIV REKKAFPLAS 120
  121 LAFEFLSRN

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	26.161151
Match:	PF04433.4
Description:	No description for PF04433.4 was found.

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [236-785]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GHINYGCIYI ISSLKLDESL SQKTVAIIGA GMAGISCARQ LTNLFAQYEQ DFLSRGEKPP  60
   61 RIVIYEASER LGGHIYTHMV PLSDNEVSEK SSLATTVNAT NECMVNLLTD SLIGMPTLDS 120
  121 DPLYIISSQQ LSLDAVHTRN REFILHDIEN GRIDTEHVQR IFRLFDALLF YFNASASKQP 180
  181 LHSLITPPEQ EFIQKLDQIG WYISIEAFPL QIKDTLSEFL GNSANTLTSL LHLTVLDLKI 240
  241 FEWFKEYLSQ SLSVSLENVY PGSIPNLNLL LGENVASYSF KHGMADMLNS LASTPSPLPI 300
  301 LFDQCVHTVK LEDNTVNLSF VNETTVSVDK VVICIPMDKL NTHLITFEPP LEEKKLKAID 360
  361 RCHFTNVKKV ILIFKTQFWE PNISIFGSLP QDSGRNFIFN DCTRFYEHPT LSVFVKVEGI 420
  421 DFMKDDDIVN GIVSQLKKVY KPKSEAINPI RTIISNWENN SYTNHSSYQI SNLFLEEDYA 480
  481 ILSEPIDNTV FFASEAISQK NSGSIRGAFD SGILAARDVL ASLIGNVVLP NTLVIEENLE 540
  541 QPRKTYGTKR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	74.0
Match:	1o5wA
Description:	The structure basis of specific recognitions for substrates and inhibitors of rat monoamine oxidase A
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [786-1000]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NAQQALGKEG ERENKEKRIS YHTEYLRLRQ KRLDKEQQEC DLLIAELLGP SPVPPSRPSA  60
   61 NPYLLYQKTQ WHVCKTLADQ DKQRVTGDPE ARATKNEIRA KLGKTWRALD SLGKQPWVDE 120
  121 INARRANYST RLEEYQRQIN SYNVRVAQIK SEHQRRCESQ PIPEDEAKLK LLAEQEDEHL 180
  181 HPEKEGMSVE NSDDDYHDDL DYEDSISEVF PDNFS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	4.045757
Match:	1i84S
Description:	Heavy meromyosin subfragment
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