YRC Public Data Repository - Protein Structure Prediction

Protein:	NIKR_DESVH
Organism:	Desulfovibrio vulgaris str. Hildenborough
Length:	139 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 NIKR_DESVH.

Description	E-value	Query Range	Subject Range
NIKR3_METAC - Putative nickel-responsive regulator 3 OS=Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 /... NIKR3_METAC, NIK... - Putative nickel-responsive regulator 3 OS=Methanosarcina acetivorans GN=MA_4075 PE=3 SV=1, (Q8TIR7) ...	184.0	[0..3]	[138..4]
gi\|20905255, gi\|... - gi\|21226944\|ref\|NP_632866.1\| hypothetical protein MM_0842 [Methanosarcina mazei Go1], gi\|20905255\|gb...	184.0	[0..3]	[138..31]
gi\|48840950, gi\|... - gi\|73668054\|ref\|YP_304069.1\| CopG family transcriptional regulator [Methanosarcina barkeri str. Fusa...	184.0	[0..3]	[138..4]
NIKR_DESAG - Putative nickel-responsive regulator OS=Desulfovibrio alaskensis (strain G20) GN=Dde_2956 PE=3 SV=1	184.0	[0..1]	[138..1]
NIKR2_METMA - Putative nickel-responsive regulator 2 OS=Methanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe... NIK2_METMA, NIKR... - Putative nickel-responsive regulator 2 OS=Methanosarcina mazei GN=MM_0842 PE=3 SV=2, (Q8PYL9) Putati...	183.0	[0..3]	[138..4]
NIKR_METBU - Putative nickel-responsive regulator OS=Methanococcoides burtonii (strain DSM 6242 / NBRC 107633 / O...	179.0	[0..3]	[138..4]
NIKR_METAR - Putative nickel-responsive regulator OS=Methanocella arvoryzae (strain DSM 22066 / NBRC 105507 / MRE...	176.0	[0..3]	[138..4]
NIKR1_METAC, NIK... - Putative nickel-responsive regulator 1 OS=Methanosarcina acetivorans GN=MA_1395 PE=3 SV=2, (Q8TQZ1) ... NIKR1_METAC - Putative nickel-responsive regulator 1 OS=Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 /...	176.0	[0..3]	[138..4]
NIKR_METMP - Putative nickel-responsive regulator OS=Methanococcus maripaludis GN=MMP0020 PE=3 SV=1 NIKR_METMP - Putative nickel-responsive regulator OS=Methanococcus maripaludis (strain S2 / LL) GN=MMP0020 PE=3 S...	175.0	[0..1]	[138..1]

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Predicted Domain #1

Region A:
Residues: [1-139]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGRTIRFGVS LDSELLDKFD VLCDERCYQT RSEAIRDLIR NTLVQQEWED TDREIAGTLT  60
   61 LVYDHHKSDL AQRLTEIQHD VHDIIITSLH VHLDHYNCLE VLVLKGPGQQ VRNLAQRLIS 120
  121 TKGVKHGKLS LTTTGQDLT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	44.09691
Match:	2bj1A
Description:	NIKR IN OPEN CONFORMATION AND NICKEL BOUND TO HIGH-AFFINITY SITES
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