YRC Public Data Repository - Protein Structure Prediction

Protein:	HMG1
Organism:	Saccharomyces cerevisiae
Length:	1054 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 HMG1.

Description	E-value	Query Range	Subject Range
HMG1 - One of two isozymes of HMG-CoA reductase that catalyzes the conversion of HMG-CoA to mevalonate, whi... HMDH1_YEAST - 3-hydroxy-3-methylglutaryl-coenzyme A reductase 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / ...	0.0	[1..1054]	[1..1054]
gi\|223946 - gi\|223946\|prf\|\|1005248A reductase,HMG CoA gi\|387052, gi\|49648 - gi\|49648\|emb\|CAA25189.1\| HMG CoA reductase [Mesocricetus auratus], gi\|387052\|gb\|AAA36989.1\| 3-hydrox... HMDH_CRIGR - 3-hydroxy-3-methylglutaryl-coenzyme A reductase OS=Cricetulus griseus GN=HMGCR PE=1 SV=1	0.0	[188..1030]	[60..875]
HMDH_MESAU - 3-hydroxy-3-methylglutaryl-coenzyme A reductase OS=Mesocricetus auratus GN=HMGCR PE=1 SV=1	0.0	[188..1030]	[60..875]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[188..1030]	[60..875]
HMGCR - 3-hydroxy-3-methylglutaryl-CoA reductase	0.0	[188..1030]	[60..876]
HMDH_RABIT - 3-hydroxy-3-methylglutaryl-coenzyme A reductase OS=Oryctolagus cuniculus GN=HMGCR PE=3 SV=1	0.0	[188..1030]	[60..876]
HMDH_CYBJA - 3-hydroxy-3-methylglutaryl-coenzyme A reductase OS=Cyberlindnera jadinii GN=HMG PE=2 SV=1	0.0	[78..1027]	[3..931]
HMDH_XENLA - 3-hydroxy-3-methylglutaryl-coenzyme A reductase OS=Xenopus laevis GN=hmgcr PE=2 SV=1	0.0	[188..1030]	[60..871]
HMDH_NICSY - 3-hydroxy-3-methylglutaryl-coenzyme A reductase OS=Nicotiana sylvestris GN=HMGR PE=2 SV=1	0.0	[462..1035]	[41..604]

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Predicted Domain #1

Region A:
Residues: [1-524]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPPLFKGLKQ MAKPIAYVSR FSAKRPIHII LFSLIISAFA YLSVIQYYFN GWQLDSNSVF  60
   61 ETAPNKDSNT LFQECSHYYR DSSLDGWVSI TAHEASELPA PHHYYLLNLN FNSPNETDSI 120
  121 PELANTVFEK DNTKYILQED LSVSKEISST DGTKWRLRSD RKSLFDVKTL AYSLYDVFSE 180
  181 NVTQADPFDV LIMVTAYLMM FYTIFGLFND MRKTGSNFWL SASTVVNSAS SLFLALYVTQ 240
  241 CILGKEVSAL TLFEGLPFIV VVVGFKHKIK IAQYALEKFE RVGLSKRITT DEIVFESVSE 300
  301 EGGRLIQDHL LCIFAFIGCS MYAHQLKTLT NFCILSAFIL IFELILTPTF YSAILALRLE 360
  361 MNVIHRSTII KQTLEEDGVV PSTARIISKA EKKSVSSFLN LSVVVIIMKL SVILLFVFIN 420
  421 FYNFGANWVN DAFNSLYFDK ERVSLPDFIT SNASENFKEQ AIVSVTPLLY YKPIKSYQRI 480
  481 EDMVLLLLRN VSVAIRDRFV SKLVLSALVC SAVINVYLLN AARI

[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: [525-577]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HTSYTADQLV KTEVTKKSFT APVQKASTPV LTNKTVISGS KVKSLSSAQS SSS

[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 #3

Region A:
Residues: [578-689]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GPSSSSEEDD SRDIESLDKK IRPLEELEAL LSSGNTKQLK NKEVAALVIH GKLPLYALEK  60
   61 KLGDTTRAVA VRRKALSILA EAPVLASDRL PYKNYDYDRV FGACCENVIG YM

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2420.0
Match:	1dq8A_
Description:	NAD-binding domain of HMG-CoA reductase; Substrate-binding domain of HMG-CoA reductase
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [690-743]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PLPVGVIGPL VIDGTSYHIP MATTEGCLVA SAMRGCKAIN AGGGATTVLT KDGM

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [846-1054]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TDKKPAAINW IEGRGKSVVA EATIPGDVVR KVLKSDVSAL VELNIAKNLV GSAMAGSVGG  60
   61 FNAHAANLVT AVFLALGQDP AQNVESSNCI TLMKEVDGDL RISVSMPSIE VGTIGGGTVL 120
  121 EPQGAMLDLL GVRGPHATAP GTNARQLARI VACAVLAGEL SLCAALAAGH LVQSHMTHNR 180
  181 KPAEPTKPNN LDATDINRLK DGSVTCIKS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2420.0
Match:	1dq8A_
Description:	NAD-binding domain of HMG-CoA reductase; Substrate-binding domain of HMG-CoA reductase
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [744-845]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TRGPVVRFPT LKRSGACKIW LDSEEGQNAI KKAFNSTSRF ARLQHIQTCL AGDLLFMRFR  60
   61 TTTGDAMGMN MISKGVEYSL KQMVEEYGWE DMEVVSVSGN YC

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2420.0
Match:	1dq8A_
Description:	NAD-binding domain of HMG-CoA reductase; Substrate-binding domain of HMG-CoA reductase
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