YRC Public Data Repository - Protein Structure Prediction

Protein:	HEM4
Organism:	Saccharomyces cerevisiae
Length:	275 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 HEM4.

Description	E-value	Query Range	Subject Range
gi\|13880041, gi\|... - gi\|15839904\|ref\|NP_334941.1\| uroporphyrin-III C-methyltransferase/uroporphyrinogen-III synthase [Myc... gi\|253318946, gi... - gi\|253797443\|ref\|YP_003030444.1\| uroporphyrin-III C-methyltransferase hemD [Mycobacterium tuberculos... gi\|254230858, gi... - gi\|254230858\|ref\|ZP_04924185.1\| uroporphyrin-III C-methyltransferase hemD [Mycobacterium tuberculosi... gi\|119700371 - gi\|119700371\|gb\|EAX12398.1\| uroporphyrin-III C-methyltransferase hemD [Mycobacterium tuberculosis F1...	4.0E-59	[2..272]	[293..549]
gi\|13093995, gi\|... - pir\|\|H87211 probable uroporphyrin-III C-methyltransferase [imported] - Mycobacterium leprae, gi\|1309... gi\|15828302 - gi\|15828302\|ref\|NP_302565.1\| uroporphyrin-III C-methyltransferase [Mycobacterium leprae TN] gi\|219933886, gi... - gi\|221230779\|ref\|YP_002504195.1\| putative uroporphyrin-III C-methyltransferase [Mycobacterium leprae...	1.0E-58	[2..272]	[288..544]
gi\|12655814 - gi\|12655814\|gb\|AAK00606.1\|AF221100_3 uroporphyrinogen III synthase/methyltransferase [Selenomonas ru...	4.0E-58	[7..270]	[259..505]
HEM4 - Uroporphyrinogen III synthase, catalyzes the conversion of hydroxymethylbilane to uroporphyrinogen I... HEM4_YEAST - Uroporphyrinogen-III synthase OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=HEM4 PE=1 ...	1.0E-57	[1..275]	[1..275]
gi\|25315418 - pir\|\|AC2237 uroporphyrinogen III methylase [imported] - Nostoc sp. (strain PCC 7120) gi\|17230942, gi\|... - gi\|17230942\|ref\|NP_487490.1\| uroporphyrinogen III methylase [Nostoc sp. PCC 7120], gi\|17132583\|dbj\|B...	3.0E-56	[1..271]	[253..513]
gi\|19421891 - gi\|19421891\|gb\|AAL87779.1\| putative uroporphyrinogen III synthase/methyltransferase [Desulfitobacter... gi\|19421891 - gi\|19421891\|gb\|AAL87779.1\|AF403184_4 putative uroporphyrinogen III synthase/methyltransferase [Desul...	2.0E-55	[7..274]	[202..452]
gi\|41324663, gi\|... - gi\|62389329\|ref\|YP_224731.1\| uroporphyrinogen III synthase/methyltransferase [Corynebacterium glutam...	4.0E-54	[7..272]	[324..576]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	8.0E-54	[7..271]	[283..533]
gi\|10175667, gi\|... - gi\|15615607\|ref\|NP_243911.1\| uroporphyrinogen-III synthase [Bacillus halodurans C-125], gi\|10175667\|... gi\|25495382 - pir\|\|E84030 uroporphyrinogen III cosynthase hemD [imported] - Bacillus halodurans (strain C-125)	1.0E-51	[6..274]	[7..251]
gi\|1001439, gi\|1... - gi\|16331265\|ref\|NP_441993.1\| uroporphyrin-III synthase [Synechocystis sp. PCC 6803], gi\|1001439\|dbj\|... gi\|7469420 - pir\|\|S76085 hypothetical protein - Synechocystis sp. (strain PCC 6803)	4.0E-51	[8..272]	[278..534]

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Predicted Domain #1

Region A:
Residues: [1-40]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSRKKVRVL LLKNKTVPID KYELECRSKA FEPIFVPLIK

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [180-275]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EELSDGFKRF IHAMKECDED EVFSDWVVVF SPQGTKEITQ YLGDSNRLPG SHLRVASIGP  60
   61 TTKKYLDDND VTSDVVSPKP DPKSLLDAIE LYQRHK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	165.228787
Match:	1jr2A_
Description:	Uroporphyrinogen III synthase (U3S, HemD)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
uroporphyrinogen-III synthase activity	3.6508024043308	bayes_pls_golite062009
catalytic activity	1.13824203225664	bayes_pls_golite062009
hydro-lyase activity	0.290711782955013	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [41-179]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HTHVIQDFRN VLNTIPNYLN TINYIIITSQ RTVESLNEAI IPTLTSEQKA ALLSKTVYTV  60
   61 GPATANFIRR SGFINVKGGE DAGNGSILAD IIIDDLSTDI KACPPSELLF LVGEIRRDII 120
  121 PKKLHSKGIK VREVVTYKT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	165.228787
Match:	1jr2A_
Description:	Uroporphyrinogen III synthase (U3S, HemD)
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

Predicted functions: