YRC Public Data Repository - Protein Structure Prediction

Protein:	mdj1
Organism:	Schizosaccharomyces pombe
Length:	528 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 mdj1.

Description	E-value	Query Range	Subject Range
gi\|107103857 - gi\|107103857\|ref\|ZP_01367775.1\| hypothetical protein PaerPA_01004928 [Pseudomonas aeruginosa PACS2] DNAJ_PSEA8 - Chaperone protein DnaJ OS=Pseudomonas aeruginosa (strain LESB58) GN=dnaJ PE=3 SV=1 DNAJ_PSEAE - Chaperone protein dnaJ OS=Pseudomonas aeruginosa GN=dnaJ PE=3 SV=1 DNAJ_PSEAB - Chaperone protein DnaJ OS=Pseudomonas aeruginosa (strain UCBPP-PA14) GN=dnaJ PE=3 SV=1 DNAJ_PSEAE - Chaperone protein DnaJ OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 1222... gi\|194549490, gi... - gi\|84317360\|ref\|ZP_00965808.1\| COG0484: DnaJ-class molecular chaperone with C-terminal Zn finger dom... gi\|126197717, gi... - gi\|84323584\|ref\|ZP_00971653.1\| COG0484: DnaJ-class molecular chaperone with C-terminal Zn finger dom...	389.0	[0..82]	[478..1]
gi\|53612269, gi\|... - gi\|67158732\|ref\|ZP_00419593.1\| DnaJ central domain (CXXCXGXG):Heat shock protein DnaJ, N-terminal:Ch... DNAJ_AZOVD - Chaperone protein DnaJ OS=Azotobacter vinelandii (strain DJ / ATCC BAA-1303) GN=dnaJ PE=3 SV=1	388.0	[0..82]	[478..1]
gi\|82703356, gi\|... - gi\|82703356\|ref\|YP_412922.1\| heat shock protein DnaJ [Nitrosospira multiformis ATCC 25196], gi\|82411...	388.0	[0..79]	[478..7]
DNAJ_BURS3 - Chaperone protein DnaJ OS=Burkholderia sp. (strain 383) GN=dnaJ PE=3 SV=1 DNAJ_BURL3 - Chaperone protein DnaJ OS=Burkholderia lata (strain ATCC 17760 / LMG 22485 / NCIMB 9086 / R18194 / 3...	386.0	[0..82]	[477..1]
DNAJ_PSEA7 - Chaperone protein DnaJ OS=Pseudomonas aeruginosa (strain PA7) GN=dnaJ PE=3 SV=1	386.0	[0..82]	[478..1]
DNAJ_BURCM - Chaperone protein DnaJ OS=Burkholderia ambifaria (strain ATCC BAA-244 / AMMD) GN=dnaJ PE=3 SV=1 DNAJ_BURA4 - Chaperone protein DnaJ OS=Burkholderia ambifaria (strain MC40-6) GN=dnaJ PE=3 SV=1	385.0	[0..82]	[477..1]
DNAJ_PSE14 - Chaperone protein DnaJ OS=Pseudomonas savastanoi pv. phaseolicola (strain 1448A / Race 6) GN=dnaJ PE...	385.0	[0..82]	[478..1]
DNAJ_BURCC - Chaperone protein DnaJ OS=Burkholderia cenocepacia (strain MC0-3) GN=dnaJ PE=3 SV=1 DNAJ_BURCJ - Chaperone protein DnaJ OS=Burkholderia cenocepacia (strain ATCC BAA-245 / DSM 16553 / LMG 16656 / NC... gi\|254246252, gi... - gi\|84356871\|ref\|ZP_00981704.1\| COG0484: DnaJ-class molecular chaperone with C-terminal Zn finger dom... DNAJ_BURCA - Chaperone protein DnaJ OS=Burkholderia cenocepacia (strain AU 1054) GN=dnaJ PE=3 SV=1 DNAJ_BURCH - Chaperone protein DnaJ OS=Burkholderia cenocepacia (strain HI2424) GN=dnaJ PE=3 SV=1	385.0	[0..82]	[477..1]
DNAJ_BURVG - Chaperone protein DnaJ OS=Burkholderia vietnamiensis (strain G4 / LMG 22486) GN=dnaJ PE=3 SV=1	384.0	[0..82]	[477..1]
DNAJ_BURCE - Chaperone protein dnaJ - Burkholderia cepacia (Pseudomonas cepacia) DNAJ_BURML - (Q5NSW9) Chaperone protein dnaJ DNAJ_BURM1 - Chaperone protein DnaJ OS=Burkholderia multivorans (strain ATCC 17616 / 249) GN=dnaJ PE=3 SV=1	384.0	[0..82]	[477..1]

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Predicted Domain #1

Region A:
Residues: [1-83]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFSKYLQSRV CGLHSFTNSS AQQLFSKSIA HSSRRNFVIS SSCTKFRNVA IQRNAKREFS  60
   61 RCAALKNFSY HARCFHATRA VWE

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [84-201]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTDPYKTLGV SKSASASEIK SAYYKLAKQY HPDANPDKAA QDKFVEIKQA YEVLQDPKKK  60
   61 KAFDTYGAGA FKNGEFTGGD FEGFQNGFAG ASSFSSGFPG FNFEDLFGFS SRGPQARR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	23.0
Match:	1bq0A
Description:	J-DOMAIN (RESIDUES 1-77) OF THE ESCHERICHIA COLI N-TERMINAL FRAGMENT (RESIDUES 1-104) OF THE MOLECULAR CHAPERONE DNAJ, NMR, 20 STRUCTURES
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
unfolded protein binding	3.04403163860617	bayes_pls_golite062009
protein binding	2.65982681685488	bayes_pls_golite062009
binding	2.63138872417193	bayes_pls_golite062009
transcription regulator activity	2.31739509739943	bayes_pls_golite062009
heat shock protein binding	2.17994194200939	bayes_pls_golite062009
DNA binding	1.88444505115207	bayes_pls_golite062009
nucleic acid binding	1.73387701301727	bayes_pls_golite062009
chaperone binding	1.61155546076854	bayes_pls_golite062009
transporter activity	1.29863098651348	bayes_pls_golite062009
nucleoside-triphosphatase regulator activity	0.927337691912581	bayes_pls_golite062009
enzyme regulator activity	0.675735261884317	bayes_pls_golite062009
protein transporter activity	0.599800483479766	bayes_pls_golite062009
substrate-specific transporter activity	0.557328784636827	bayes_pls_golite062009
Hsp70 protein binding	0.541755903922701	bayes_pls_golite062009
GTPase regulator activity	0.130185025729857	bayes_pls_golite062009
catalytic activity	0.106988907594358	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [202-528]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NTSFDVFVGE DIEASITIDF MEAVRGAKKD LSYSVSSTCS SCHGSGLQPG SHKSTCFACK  60
   61 GTGQRLHFIP PSFHMQTTCD SCGGTGTTIP PNSACRSCMG SGTVRERKTV SIDIPPGIDD 120
  121 NTVLRVMGAG NDASTAKGGP NAKSRPGDLF ATIHVRKHPF FVREGTNVTY NAKIPMTTAA 180
  181 LGGTLRVPTL TGNVDLRVSP GTSTGDRITM AGKGIRKVNT SRYGNFYVNF EVTIPKILSP 240
  241 HERSLLEQLA DALNDSTARR TQSSPSGTNS STSTSSTSSK HSTGISTEPT TGEENKQDGS 300
  301 VGGFFKRAFR RLHPDEDQNP KKDESSS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	50.39794
Match:	1nltA
Description:	The crystal structure of Hsp40 Ydj1
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	2.7298921704023	bayes_pls_golite062009
protein binding	2.6297172985864	bayes_pls_golite062009
protein disulfide isomerase activity	2.4409950647303	bayes_pls_golite062009
intramolecular oxidoreductase activity, transposing S-S bonds	2.4409950647303	bayes_pls_golite062009
intramolecular oxidoreductase activity, interconverting keto- and enol-groups	2.23398279564144	bayes_pls_golite062009
unfolded protein binding	2.04158808514315	bayes_pls_golite062009
nucleoside-triphosphatase regulator activity	0.594882036388263	bayes_pls_golite062009
receptor binding	0.395342079633271	bayes_pls_golite062009
enzyme regulator activity	0.301226589648736	bayes_pls_golite062009
catalytic activity	0.276917867171685	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:

Predicted functions: