YRC Public Data Repository - Protein Structure Prediction

Protein:	HEM12
Organism:	Saccharomyces cerevisiae
Length:	362 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 HEM12.

Description	E-value	Query Range	Subject Range
gi\|189001799, gi... - gi\|189001799\|gb\|EDU70785.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. EC4076], g... DCUP_ECO57 - Uroporphyrinogen decarboxylase OS=Escherichia coli O157:H7 GN=hemE PE=3 SV=1 gi\|168777390, gi... - gi\|187767364\|gb\|EDU31208.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. EC4196], g... gi\|254595395, gi... - gi\|254795995\|ref\|YP_003080832.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. TW143... gi\|189379217, gi... - gi\|189379217\|gb\|EDU97633.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. EC508], gi... gi\|168790357, gi... - gi\|189370169\|gb\|EDU88585.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. EC869], gi... gi\|168758607, gi... - gi\|189354597\|gb\|EDU73016.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. EC4401], g... gi\|188014036, gi... - gi\|188014036\|gb\|EDU52158.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. EC4113], g... gi\|168771469, gi... - gi\|189359758\|gb\|EDU78177.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. EC4486], g... gi\|168764577, gi... - gi\|189365451\|gb\|EDU83867.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. EC4501], g... gi\|209751708, gi... - pir\|\|H91243 uroporphyrinogen decarboxylase [imported] - Escherichia coli (strain O157:H7, substrain ... gi\|217326346, gi... - gi\|217326346\|ref\|ZP_03442430.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. TW1458... DCUP_ECO5E - Uroporphyrinogen decarboxylase OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=hemE PE=3 SV=1 gi\|208728531, gi... - gi\|208808730\|ref\|ZP_03251067.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. EC4206... gi\|195939623 - gi\|195939623\|ref\|ZP_03085005.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. EC4024... gi\|15834174, gi\|... - gi\|15834174\|ref\|NP_312947.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. Sakai], g... gi\|208818935, gi... - gi\|208818935\|ref\|ZP_03259255.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. EC4042... gi\|208813578, gi... - gi\|208813578\|ref\|ZP_03254907.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 str. EC4045...	0.0	[6..362]	[3..351]
EG11543 - uroporphyrinogen decarboxylase / Uroporphyrinogen decarboxylase DCUP_ECOBW - Uroporphyrinogen decarboxylase OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=hemE PE=3 SV=1 gi\|251787255, gi... - gi\|251787255\|ref\|YP_003001559.1\| hypothetical protein B21_03827 [Escherichia coli BL21], gi\|24237952... gi\|254290689, gi... - gi\|254290689\|ref\|YP_003056437.1\| uroporphyrinogen decarboxylase [Escherichia coli BL21(DE3)], gi\|253... DCUP_ECOSM - Uroporphyrinogen decarboxylase OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=hemE PE=3 SV=1 gi\|254039254, gi... - gi\|254039254\|ref\|ZP_04873303.1\| uroporphyrinogen decarboxylase [Escherichia sp. 1_1_43], gi\|22683848... DCUP_ECODH - Uroporphyrinogen decarboxylase OS=Escherichia coli (strain K12 / DH10B) GN=hemE PE=3 SV=1 gi\|254163939, gi... - gi\|254163939\|ref\|YP_003047047.1\| uroporphyrinogen decarboxylase [Escherichia coli B str. REL606], gi... DCUP_ECOLC - Uroporphyrinogen decarboxylase OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=hemE PE... gi\|83584827, gi\|... - gi\|83584827\|ref\|ZP_00923487.1\| COG0407: Uroporphyrinogen-III decarboxylase [Escherichia coli 101-1],... DCUP_SHISS - Uroporphyrinogen decarboxylase OS=Shigella sonnei (strain Ss046) GN=hemE PE=3 SV=1 gi\|85676072, gi\|... - gi\|89110041\|ref\|AP_003821.1\| uroporphyrinogen decarboxylase [Escherichia coli str. K-12 substr. W311... EG11543 - uroporphyrinogen decarboxylase / Uroporphyrinogen decarboxylase DCUP_ECOLI - Uroporphyrinogen decarboxylase (EC 4.1.1.37) (URO-D) (UPD) - Escherichia coli DCUP_ECOHS - Uroporphyrinogen decarboxylase OS=Escherichia coli O9:H4 (strain HS) GN=hemE PE=3 SV=1 DCUP_ECO8A - Uroporphyrinogen decarboxylase OS=Escherichia coli O8 (strain IAI1) GN=hemE PE=3 SV=1 gi\|194429956, gi... - gi\|75208795\|ref\|ZP_00709081.1\| COG0407: Uroporphyrinogen-III decarboxylase [Escherichia coli B171], ... DCUP_ECOSE - Uroporphyrinogen decarboxylase OS=Escherichia coli (strain SE11) GN=hemE PE=3 SV=1 DCUP_SHIB3 - Uroporphyrinogen decarboxylase OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=hemE P... DCUP_ECO24 - Uroporphyrinogen decarboxylase OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=hemE PE=3 SV=... DCUP_ECOLU - Uroporphyrinogen decarboxylase OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=hemE PE=3 ... gi\|192925942, gi... - gi\|75255494\|ref\|ZP_00727293.1\| COG0407: Uroporphyrinogen-III decarboxylase [Escherichia coli E22], g... gi\|188486933, gi... - gi\|75514764\|ref\|ZP_00736993.1\| COG0407: Uroporphyrinogen-III decarboxylase [Escherichia coli 53638],... gi\|75228132, gi\|... - gi\|75228132\|ref\|ZP_00714801.1\| COG0407: Uroporphyrinogen-III decarboxylase [Escherichia coli B7A], g... gi\|193067936, gi... - gi\|75238538\|ref\|ZP_00722527.1\| COG0407: Uroporphyrinogen-III decarboxylase [Escherichia coli E110019... gi\|124498597, gi... - gi\|124531383\|ref\|ZP_01701693.1\| uroporphyrinogen decarboxylase [Escherichia coli B], gi\|124498597\|gb...	0.0	[6..362]	[3..351]
gi\|121547147, gi... - gi\|121591006\|ref\|ZP_01678324.1\| uroporphyrinogen decarboxylase [Vibrio cholerae 2740-80], gi\|1215471... gi\|227080544, gi... - gi\|227080544\|ref\|YP_002809095.1\| uroporphyrinogen decarboxylase [Vibrio cholerae M66-2], gi\|22700843... gi\|125617329, gi... - gi\|254851641\|ref\|ZP_05240991.1\| uroporphyrinogen decarboxylase [Vibrio cholerae MO10], gi\|254847346\|... gi\|153224505, gi... - gi\|153224505\|ref\|ZP_01954479.1\| uroporphyrinogen decarboxylase [Vibrio cholerae MAK 757], gi\|1241175... gi\|15640359, gi\|... - gi\|9654747\|gb\|AAF93505.1\| uroporphyrinogen decarboxylase [Vibrio cholerae O1 biovar El Tor str. N169... gi\|126519339, gi... - gi\|229508678\|ref\|ZP_04398172.1\| uroporphyrinogen III decarboxylase [Vibrio cholerae B33], gi\|2293543... gi\|229369042, gi... - gi\|229606387\|ref\|YP_002877035.1\| uroporphyrinogen III decarboxylase [Vibrio cholerae MJ-1236], gi\|22... gi\|11267825 - gi\|11267825\|pir\|\|C82335 uroporphyrinogen decarboxylase VC0332 [imported] - Vibrio cholerae (strain N... gi\|153819680, gi... - gi\|153819680\|ref\|ZP_01972347.1\| uroporphyrinogen decarboxylase [Vibrio cholerae NCTC 8457], gi\|12650... gi\|227116738, gi... - gi\|227116738\|ref\|YP_002818634.1\| uroporphyrinogen decarboxylase [Vibrio cholerae O395], gi\|227012188... gi\|229355978, gi... - gi\|229506873\|ref\|ZP_04396381.1\| uroporphyrinogen III decarboxylase [Vibrio cholerae BX 330286], gi\|2... gi\|229346963, gi... - gi\|229516060\|ref\|ZP_04405511.1\| uroporphyrinogen III decarboxylase [Vibrio cholerae RC9], gi\|2293469...	0.0	[6..360]	[7..354]
gi\|409791\|gb\|AAC... - uroporphyrinogen decarboxylase [Escherichia coli] gi\|409791 - gi\|409791\|gb\|AAC43095.1\| uroporphyrinogen decarboxylase [Escherichia coli str. K-12 substr. MG1655]	0.0	[6..362]	[3..351]
gi\|12518926, gi\|... - gi\|15804588\|ref\|NP_290629.1\| uroporphyrinogen decarboxylase [Escherichia coli O157:H7 EDL933], gi\|12... gi\|25291017 - gi\|25291017\|pir\|\|F86091 uroporphyrinogen decarboxylase [imported] - Escherichia coli (strain O157:H7...	0.0	[6..362]	[3..351]
gi\|29143778, gi\|... - gi\|29143778\|ref\|NP_807120.1\| uroporphyrinogen decarboxylase [Salmonella enterica subsp. enterica ser... DCUP_SALTI - Uroporphyrinogen decarboxylase OS=Salmonella typhi GN=hemE PE=3 SV=1 gi\|16762290 - gi\|16762290\|ref\|NP_457907.1\| uroporphyrinogen decarboxylase [Salmonella enterica subsp. enterica ser... DCUP_SALTI - Uroporphyrinogen decarboxylase OS=Salmonella typhi GN=hemE PE=3 SV=1 gi\|213051529 - gi\|213051529\|ref\|ZP_03344407.1\| uroporphyrinogen decarboxylase [Salmonella enterica subsp. enterica ... DCUP_SALEP - Uroporphyrinogen decarboxylase OS=Salmonella enteritidis PT4 (strain P125109) GN=hemE PE=3 SV=1 DCUP_SALG2 - Uroporphyrinogen decarboxylase OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=hemE PE=3 SV... gi\|168264577, gi... - gi\|205346991\|gb\|EDZ33622.1\| uroporphyrinogen decarboxylase [Salmonella enterica subsp. enterica sero... gi\|214001632 - gi\|214001632\|ref\|ZP_03412367.1\| uroporphyrinogen decarboxylase [Salmonella enterica subsp. enterica ... gi\|213854790 - gi\|213854790\|ref\|ZP_03383030.1\| uroporphyrinogen decarboxylase [Salmonella enterica subsp. enterica ... gi\|213647195 - gi\|213647195\|ref\|ZP_03377248.1\| uroporphyrinogen decarboxylase [Salmonella enterica subsp. enterica ... gi\|213428482 - gi\|213428482\|ref\|ZP_03361232.1\| uroporphyrinogen decarboxylase [Salmonella enterica subsp. enterica ...	0.0	[6..362]	[3..351]
gi\|166012062, gi... - gi\|166012062\|ref\|ZP_02232960.1\| uroporphyrinogen decarboxylase [Yersinia pestis biovar Antiqua str. ... gi\|165928321, gi... - gi\|165928321\|ref\|ZP_02224153.1\| uroporphyrinogen decarboxylase [Yersinia pestis biovar Orientalis st... gi\|167402412, gi... - gi\|167402412\|ref\|ZP_02307872.1\| uroporphyrinogen decarboxylase [Yersinia pestis biovar Antiqua str. ... gi\|166204421, gi... - gi\|166214417\|ref\|ZP_02240452.1\| uroporphyrinogen decarboxylase [Yersinia pestis biovar Antiqua str. ... gi\|167426822, gi... - gi\|167426822\|ref\|ZP_02318575.1\| uroporphyrinogen decarboxylase [Yersinia pestis biovar Mediaevalis s... DCUP_YERPG - Uroporphyrinogen decarboxylase OS=Yersinia pestis bv. Antiqua (strain Angola) GN=hemE PE=3 SV=1 gi\|166957141, gi... - gi\|167422930\|ref\|ZP_02314683.1\| uroporphyrinogen decarboxylase [Yersinia pestis biovar Orientalis st... DCUP_YERPY - Uroporphyrinogen decarboxylase OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=hemE PE... gi\|167470604 - gi\|167470604\|ref\|ZP_02335308.1\| uroporphyrinogen decarboxylase [Yersinia pestis FV-1] gi\|229704170, gi... - gi\|229837482\|ref\|ZP_04457644.1\| uroporphyrinogen decarboxylase [Yersinia pestis Pestoides A], gi\|229... gi\|229839417, gi... - gi\|229839417\|ref\|ZP_04459576.1\| uroporphyrinogen decarboxylase [Yersinia pestis biovar Orientalis st... gi\|89101889, gi\|... - gi\|89101889\|ref\|ZP_01174573.1\| COG0407: Uroporphyrinogen-III decarboxylase [Yersinia pestis biovar O... gi\|229899979, gi... - gi\|229899979\|ref\|ZP_04515119.1\| uroporphyrinogen decarboxylase [Yersinia pestis biovar Orientalis st... DCUP_YERPE - Uroporphyrinogen decarboxylase OS=Yersinia pestis GN=hemE PE=3 SV=1 DCUP_YERPA - Uroporphyrinogen decarboxylase OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=hemE PE=3 SV=1 DCUP_YERPN - Uroporphyrinogen decarboxylase OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=hemE PE=3 SV=1 gi\|21957194, gi\|... - gi\|22124411\|ref\|NP_667834.1\| uroporphyrinogen decarboxylase [Yersinia pestis KIM], gi\|21957194\|gb\|AA... gi\|15981650, gi\|... - gi\|218930739\|ref\|YP_002348614.1\| uroporphyrinogen decarboxylase [Yersinia pestis CO92], gi\|16123871\|... gi\|45437717, gi\|... - gi\|45442851\|ref\|NP_994390.1\| uroporphyrinogen decarboxylase [Yersinia pestis biovar Microtus str. 91... gi\|149289340, gi... - gi\|153997232\|ref\|ZP_02022339.1\| uroporphyrinogen decarboxylase [Yersinia pestis CA88-4125], gi\|14928... DCUP_YERPP - Uroporphyrinogen decarboxylase OS=Yersinia pestis (strain Pestoides F) GN=hemE PE=3 SV=1 DCUP_YERPB - Uroporphyrinogen decarboxylase OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=hemE PE=...	0.0	[6..361]	[3..350]
gi\|18158958 - gi\|18158958\|pdb\|1JPH\|A Chain A, Ile260thr Mutant Of Human Urod, Human Uroporphyrinogen Iii Decarboxy...	0.0	[4..361]	[32..383]
DCUP_DANRE - Uroporphyrinogen decarboxylase OS=Danio rerio GN=urod PE=2 SV=1	0.0	[3..362]	[12..365]
DCUP_SALTY - Uroporphyrinogen decarboxylase OS=Salmonella typhimurium GN=hemE PE=3 SV=1 DCUP_SALTY - Uroporphyrinogen decarboxylase OS=Salmonella typhimurium GN=hemE PE=3 SV=1 DCUP_SALTY - Uroporphyrinogen decarboxylase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=he...	0.0	[6..362]	[3..351]

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Predicted Domain #1

Region A:
Residues: [1-362]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGNFPAPKND LILRAAKGEK VERPPCWIMR QAGRYLPEYH EVKNNRDFFQ TCRDAEIASE  60
   61 ITIQPVRRYR GLIDAAIIFS DILVIPQAMG MRVEMLEGKG PHFPEPLRNP EDLQTVLDYK 120
  121 VDVLKELDWA FKAITMTRIK LDGEVPLFGF CGGPWTLMVY MTEGGGSRLF RFAKQWINMY 180
  181 PELSHKLLQK ITDVAVEFLS QQVVAGAQIL QVFESWGGEL SSVDFDEFSL PYLRQIAERV 240
  241 PKRLQELGIM EQIPMIVFAK GSWYALDKLC CSGFDVVSLD WSWDPREAVK INKNRVTLQG 300
  301 NLDPGVMYGS KEVITKKVKQ MIEAFGGGKS RYIVNFGHGT HPFMDPDVIK FFLEECHRIG 360
  361 SK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1148.0
Match:	1uroA_
Description:	Uroporphyrinogen decarboxylase, UROD
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
uroporphyrinogen decarboxylase activity	4.48282084722609	bayes_pls_golite062009
catalytic activity	2.37862248560593	bayes_pls_golite062009
carboxy-lyase activity	1.67493268854029	bayes_pls_golite062009
carbon-carbon lyase activity	1.54242506764415	bayes_pls_golite062009
binding	1.19577203030346	bayes_pls_golite062009
transferase activity	1.11861612545715	bayes_pls_golite062009
protein binding	0.30230496242508	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: