YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|30680811, gi\|...
Organism:	Arabidopsis thaliana
Length:	589 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 gi|30680811, gi|....

Description	E-value	Query Range	Subject Range
gi\|25411938, gi\|... - gi\|3687231\|gb\|AAC62129.1\| hypothetical protein [Arabidopsis thaliana], pir\|\|B84582 hypothetical prot...	255.0	[0..13]	[589..1]
gi\|89094562, gi\|... - gi\|89094562\|ref\|ZP_01167500.1\| hypothetical protein MED92_00984 [Oceanospirillum sp. MED92], gi\|8908...	243.0	[0..341]	[586..21]
gi\|88819139, gi\|... - gi\|88858913\|ref\|ZP_01133554.1\| Gm2251 methyltransferase of 23S rRNA [Pseudoalteromonas tunicata D2],...	242.0	[0..340]	[586..20]
gi\|109897320, gi... - gi\|76793682\|ref\|ZP_00776165.1\| RNA methyltransferase TrmH, group 3 [Pseudoalteromonas atlantica T6c]...	240.0	[0..321]	[588..2]
RLMB_VIBPA - 23S rRNA (guanosine-2'-O-)-methyltransferase RlmB OS=Vibrio parahaemolyticus GN=rlmB PE=3 SV=1 RLMB_VIBPA - 23S rRNA (guanosine-2'-O-)-methyltransferase RlmB OS=Vibrio parahaemolyticus serotype O3:K6 (strain ...	240.0	[0..340]	[589..20]
gi\|114770938 - gi\|114770938\|ref\|ZP_01448406.1\| hypothetical protein OM2255_16034 [alpha proteobacterium HTCC2255] gi\|221133725 - gi\|221133725\|ref\|ZP_03560030.1\| 23S rRNA (guanosine-2'-O-)-methyltransferase [Glaciecola sp. HTCC299... gi\|114770938, gi... - gi\|114770938\|ref\|ZP_01448406.1\| hypothetical protein OM2255_16034 [alpha proteobacterium HTCC2255], ...	239.0	[0..319]	[588..1]
RLMB_VIBVU - 23S rRNA (guanosine-2'-O-)-methyltransferase RlmB OS=Vibrio vulnificus (strain CMCP6) GN=rlmB PE=3 S... RLMB_VIBVU - 23S rRNA (guanosine-2'-O-)-methyltransferase RlmB OS=Vibrio vulnificus GN=rlmB PE=3 SV=1 RLMB_VIBVY - 23S rRNA (guanosine-2'-O-)-methyltransferase RlmB OS=Vibrio vulnificus (strain YJ016) GN=rlmB PE=3 S...	238.0	[0..340]	[589..20]
gi\|76876305, gi\|... - gi\|77361394\|ref\|YP_340969.1\| 23S rRNA (guanosine-2'-O-)-methyltransferase [Pseudoalteromonas halopla...	238.0	[0..340]	[587..20]
gi\|77954715, gi\|... - gi\|77954715\|ref\|ZP_00819103.1\| RNA methyltransferase TrmH, group 3 [Marinobacter aquaeolei VT8], gi\|...	238.0	[0..329]	[586..9]
gi\|94427333, gi\|... - gi\|94500543\|ref\|ZP_01307074.1\| RNA methyltransferase, TrmH family, group 3 [Oceanobacter sp. RED65],...	238.0	[0..340]	[589..20]

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Predicted Domain #1

Region A:
Residues: [1-239]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MYCNLTRSQG FPMAIRVSLQ QTTIKSCLQF SKSSYLPVKF HLNPKGSTFA HVSTGLVSSR  60
   61 LNSMKIRMLR NPEGVREFSS FDSQRFGKRS SSNSSRGKSG LGSKAYRDKR SGGSGRSSGD 120
  121 SIWVKSDEKP VEERFQRGDR PSWEKRDGRN DSGSDRRSRS RGYGETRNRD SFRGRRDDRI 180
  181 SEVEEESKKG GGNSIWVAND DKPAKEQSPR VNNRSSWDDR TRNQNSFSAR GDDRITEEA

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [240-310]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EEETMNHAPE DGDGIVEEEP DNTRWSEIKN RFNRYDVRDQ GRDDAAYRNW NRQESWGRKT  60
   61 WQEATESSVP R

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.478	a.159.2	FF domain
View	Download	0.457	a.8.11	Description not found.
View	Download	0.449	a.60.15	Description not found.
View	Download	0.389	a.5.7	4-hydroxy-2-oxovalerate aldolase DmpG, communication domain
View	Download	0.389	a.5.7	4-hydroxy-2-oxovalerate aldolase DmpG, communication domain
View	Download	0.378	a.5.3	N-terminal domain of phosphatidylinositol transfer protein sec14p
View	Download	0.359	d.43.1	Elongation factor Ts (EF-Ts), dimerisation domain
View	Download	0.295	a.144.1	PABC (PABP) domain

Predicted Domain #3

Region A:
Residues: [311-589]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LEGEVVYGVS PVLAALSVGR REFYALYVQE GLDLSSNNRK KKDKKGFERV LKISEKLGLN  60
   61 IKETSKHDLN MVADNRPHQG LVLDASPLEL VKVKELDPIS SEEEKYSLWV ALDEVTDPQN 120
  121 LGAIIRSAYF FGATGVVVCA KNSAPLSAVV SKASAGSLEV MELRYCKNMM QFLEASAENG 180
  181 WRVVGGSVSP KAVALNEVLP GSPTILVLGN EGTGLRPLVE RSCTDLVRIS GNMPNEVAVT 240
  241 ESDDAEGEGF RSFLAVESLN VSVAAGLFLH HLIGNKASA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	60.0
Match:	1gz0A
Description:	RlmB, C-terminal domain; RlmB, N-terminal domain
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