YRC Public Data Repository - Protein Structure Prediction

Protein:	SER1
Organism:	Saccharomyces cerevisiae
Length:	395 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 SER1.

Description	E-value	Query Range	Subject Range
ISCS_SALPB - Cysteine desulfurase IscS OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=iscS PE=3 SV=1 ISCS_SALEP - Cysteine desulfurase IscS OS=Salmonella enteritidis PT4 (strain P125109) GN=iscS PE=3 SV=1 ISCS_SALG2 - Cysteine desulfurase IscS OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=iscS PE=3 SV=1 gi\|204929449, gi... - gi\|204929449\|ref\|ZP_03220523.1\| cysteine desulfurase IscS [Salmonella enterica subsp. enterica serov... gi\|200389006, gi... - gi\|200389006\|ref\|ZP_03215618.1\| cysteine desulfurase IscS [Salmonella enterica subsp. enterica serov... ISCS_SALTY - Cysteine desulfurase OS=Salmonella typhimurium GN=iscS PE=3 SV=1 ISCS_SALCH - Cysteine desulfurase OS=Salmonella choleraesuis GN=iscS PE=3 SV=1 gi\|238912664 - gi\|238912664\|ref\|ZP_04656501.1\| cysteine desulfurase [Salmonella enterica subsp. enterica serovar Te... ISCS_SALTY - Cysteine desulfurase OS=Salmonella typhimurium GN=iscS PE=3 SV=1 ISCS_SALPA - Cysteine desulfurase IscS OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=iscS PE=3 SV=1 lcl\|NC_016856.1_... - [gene=nifS] [protein=cysteine desulfurase] [protein_id=YP_005238645.1] [location=complement(2733089.... ISCS_SALPA - Cysteine desulfurase OS=Salmonella paratyphi A GN=iscS PE=3 SV=1 ISCS_SALCH - Cysteine desulfurase OS=Salmonella choleraesuis GN=iscS PE=3 SV=1 ISCS_SALCH - Cysteine desulfurase IscS OS=Salmonella choleraesuis (strain SC-B67) GN=iscS PE=3 SV=1 gi\|194471395, gi... - gi\|194471395\|ref\|ZP_03077379.1\| cysteine desulfurase IscS [Salmonella enterica subsp. enterica serov... ISCS_SALHS - Cysteine desulfurase IscS OS=Salmonella heidelberg (strain SL476) GN=iscS PE=3 SV=1 ISCS_SALNS - Cysteine desulfurase IscS OS=Salmonella newport (strain SL254) GN=iscS PE=3 SV=1 ISCS_SALTY - Cysteine desulfurase IscS OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=iscS PE... gi\|168821477, gi... - gi\|205341918\|gb\|EDZ28682.1\| cysteine desulfurase IscS [Salmonella enterica subsp. enterica serovar W... ISCS_SALDC - Cysteine desulfurase IscS OS=Salmonella dublin (strain CT_02021853) GN=iscS PE=3 SV=1 ISCS_SALPK - Cysteine desulfurase IscS OS=Salmonella paratyphi A (strain AKU_12601) GN=iscS PE=3 SV=1 gi\|197263596, gi... - gi\|197263596\|ref\|ZP_03163670.1\| cysteine desulfurase IscS [Salmonella enterica subsp. enterica serov... ISCS_SALPB - Cysteine desulfurase OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=iscS PE=3 SV=1 ISCS_SALA4 - Cysteine desulfurase IscS OS=Salmonella agona (strain SL483) GN=iscS PE=3 SV=1 gi\|167992668, gi... - gi\|205329088\|gb\|EDZ15852.1\| cysteine desulfurase IscS [Salmonella enterica subsp. enterica serovar 4... gi\|205325222, gi... - gi\|205325222\|gb\|EDZ13061.1\| cysteine desulfurase IscS [Salmonella enterica subsp. enterica serovar S... gi\|168466701, gi... - gi\|195630769\|gb\|EDX49361.1\| cysteine desulfurase IscS [Salmonella enterica subsp. enterica serovar N... gi\|168261415, gi... - gi\|205349590\|gb\|EDZ36221.1\| cysteine desulfurase IscS [Salmonella enterica subsp. enterica serovar H... gi\|168243327, gi... - gi\|205337629\|gb\|EDZ24393.1\| cysteine desulfurase IscS [Salmonella enterica subsp. enterica serovar H... gi\|205333600, gi... - gi\|205333600\|gb\|EDZ20364.1\| cysteine desulfurase IscS [Salmonella enterica subsp. enterica serovar K...	2.0E-83	[1..393]	[1..379]
gi\|213580753 - gi\|213580753\|ref\|ZP_03362579.1\| cysteine desulfurase [Salmonella enterica subsp. enterica serovar Ty... ISCS_SALTI - Cysteine desulfurase IscS OS=Salmonella typhi GN=iscS PE=3 SV=1 gi\|29136471, gi\|... - gi\|29140846\|ref\|NP_804188.1\| cysteine desulfurase [Salmonella enterica subsp. enterica serovar Typhi... gi\|214000603 - gi\|214000603\|ref\|ZP_03411338.1\| cysteine desulfurase [Salmonella enterica subsp. enterica serovar Ty... gi\|213646425 - gi\|213646425\|ref\|ZP_03376478.1\| cysteine desulfurase [Salmonella enterica subsp. enterica serovar Ty... ISCS_SALTI - Cysteine desulfurase OS=Salmonella typhi GN=iscS PE=3 SV=1 gi\|16761457 - gi\|16761457\|ref\|NP_457074.1\| cysteine desulfurase [Salmonella enterica subsp. enterica serovar Typhi...	2.0E-83	[1..393]	[1..379]
CSD_BACSU - Probable cysteine desulfurase OS=Bacillus subtilis GN=csd PE=3 SV=1 gi\|221324740 - gi\|221324740\|ref\|ZP_03606034.1\| cysteine desulfurase [Bacillus subtilis subsp. subtilis str. SMY] gi\|221315541 - gi\|221315541\|ref\|ZP_03597346.1\| cysteine desulfurase [Bacillus subtilis subsp. subtilis str. NCIB 36... gi\|221320456 - gi\|221320456\|ref\|ZP_03601750.1\| cysteine desulfurase [Bacillus subtilis subsp. subtilis str. JH642] SUFS_BACSU - Cysteine desulfurase SufS OS=Bacillus subtilis (strain 168) GN=sufS PE=1 SV=1	1.0E-82	[6..392]	[21..400]
gi\|12516934, gi\|... - gi\|15803057\|ref\|NP_289087.1\| cysteine desulfurase [Escherichia coli O157:H7 EDL933], gi\|12516934\|gb\|... gi\|13362867 - gi\|13362867\|dbj\|BAB36819.1\| cysteine desulfurase [Escherichia coli O157:H7 str. Sakai] gi\|73856533, gi\|... - gi\|74313056\|ref\|YP_311475.1\| putative aminotransferase [Shigella sonnei Ss046], gi\|73856533\|gb\|AAZ89... gi\|91211857, gi\|... - gi\|91211857\|ref\|YP_541843.1\| cysteine desulfurase [Escherichia coli UTI89], gi\|91073431\|gb\|ABE08312.... gi\|115513882, gi... - gi\|117624758\|ref\|YP_853671.1\| cysteine desulfurase [Escherichia coli APEC O1], gi\|115513882\|gb\|ABJ01... gi\|237705041, gi... - gi\|237705041\|ref\|ZP_04535522.1\| cysteine desulfurase [Escherichia sp. 3_2_53FAA], gi\|226901407\|gb\|EE... gi\|7447233, gi\|2... - gi\|7447233\|pir\|\|A65030 probable iron-sulfur cofactor synthesis protein b2530 - Escherichia coli (str... gi\|26248898, gi\|... - gi\|26248898\|ref\|NP_754938.1\| cysteine desulfurase [Escherichia coli CFT073], gi\|26109304\|gb\|AAN81506... gi\|82777913, gi\|... - gi\|82777913\|ref\|YP_404262.1\| putative aminotransferase [Shigella dysenteriae Sd197], gi\|81242061\|gb\|... gi\|13362867 - gi\|13362867\|dbj\|BAB36819.1\| cysteine desulfurase [Escherichia coli O157:H7] gi\|82544979, gi\|... - gi\|82544979\|ref\|YP_408926.1\| putative aminotransferase [Shigella boydii Sb227], gi\|81246390\|gb\|ABB67...	1.0E-82	[1..393]	[9..387]
NIFS_TRIAZ - Cysteine desulfurase OS=Trichormus azollae GN=nifS PE=3 SV=1 NIFS1_ANAVT - Cysteine desulfurase 1 OS=Anabaena variabilis (strain ATCC 29413 / PCC 7937) GN=nifS1 PE=3 SV=2	3.0E-82	[5..393]	[1..375]
gi\|25312963 - pir\|\|AE1988 nitrogenase cofactor synthesis protein [imported] - Nostoc sp. (strain PCC 7120) NIFS_NOSS1 - Cysteine desulfurase OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=nifS PE=3 SV=3	6.0E-82	[5..393]	[1..375]
gi\|229505638, gi... - gi\|229505638\|ref\|ZP_04395148.1\| cysteine desulfurase [Vibrio cholerae BX 330286], gi\|229357861\|gb\|EE... gi\|229350006, gi... - gi\|229513113\|ref\|ZP_04402579.1\| cysteine desulfurase [Vibrio cholerae TMA 21], gi\|229350006\|gb\|EEO14... gi\|229344527, gi... - gi\|229517812\|ref\|ZP_04407256.1\| cysteine desulfurase [Vibrio cholerae RC9], gi\|229344527\|gb\|EEO09501... gi\|229608656, gi... - gi\|229608656\|ref\|YP_002879304.1\| cysteine desulfurase [Vibrio cholerae MJ-1236], gi\|229371311\|gb\|ACQ... gi\|197752903, gi... - gi\|254285466\|ref\|ZP_04960430.1\| aminotransferase NifS, class V [Vibrio cholerae AM-19226], gi\|197752... gi\|153824633, gi... - gi\|153824633\|ref\|ZP_01977300.1\| aminotransferase NifS, class V [Vibrio cholerae MZO-2], gi\|149741851... gi\|126512180, gi... - gi\|153817264\|ref\|ZP_01969931.1\| aminotransferase NifS, class V [Vibrio cholerae NCTC 8457], gi\|12651... gi\|126519747, gi... - gi\|229510690\|ref\|ZP_04400169.1\| cysteine desulfurase [Vibrio cholerae B33], gi\|229350655\|gb\|EEO15596... gi\|75832008, gi\|... - gi\|75832008\|ref\|ZP_00761267.1\| COG1104: Cysteine sulfinate desulfinase/cysteine desulfurase and rela... ISCS_VIBC3 - Cysteine desulfurase IscS OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / ... gi\|75814869, gi\|... - gi\|75814869\|ref\|ZP_00745412.1\| COG1104: Cysteine sulfinate desulfinase/cysteine desulfurase and rela... ISCS_VIBCH - Cysteine desulfurase OS=Vibrio cholerae GN=iscS PE=3 SV=1 ISCS_VIBCH - Cysteine desulfurase IscS OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) G...	7.0E-82	[1..393]	[1..379]
ISCS_PASMU - Cysteine desulfurase OS=Pasteurella multocida GN=iscS PE=3 SV=1 ISCS_PASMU - Cysteine desulfurase IscS OS=Pasteurella multocida (strain Pm70) GN=iscS PE=3 SV=1	9.0E-82	[1..393]	[1..379]
CSD_BACHD - Probable cysteine desulfurase OS=Bacillus halodurans GN=csd PE=3 SV=2 CSD_BACHD - Probable cysteine desulfurase OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / ...	3.0E-81	[6..392]	[21..400]

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Predicted Domain #1

Region A:
Residues: [1-15]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSLEREEPQH FGAGP

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [299-395]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AENEEKAKIL YEALDANSDF YNVPVDPKCR SKMNVVFTLK KDGLDDQFLK EAAARHLTGL  60
   61 KGHRSVGGFR ASIYNALSVK AVQNLVDFIK EFAEKNA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	730.165202
Match:	1bjoA_
Description:	Phosphoserine aminotransferase, PSAT
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	2.29878871754893	bayes_pls_golite062009
O-phospho-L-serine:2-oxoglutarate aminotransferase activity	2.1692959843619	bayes_pls_golite062009
glycine dehydrogenase (decarboxylating) activity	1.80372125032222	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH2 group of donors, disulfide as acceptor	1.80372125032222	bayes_pls_golite062009
transferase activity	1.44093490824786	bayes_pls_golite062009
5-aminolevulinate synthase activity	1.42214433786345	bayes_pls_golite062009
transferase activity, transferring nitrogenous groups	1.28316822767388	bayes_pls_golite062009
transaminase activity	1.24990480711889	bayes_pls_golite062009
L-aspartate:2-oxoglutarate aminotransferase activity	0.81652984148807	bayes_pls_golite062009
transcription regulator activity	0.636782746250952	bayes_pls_golite062009
nucleic acid binding	0.526698053525422	bayes_pls_golite062009
DNA binding	0.516618701017633	bayes_pls_golite062009
binding	0.450641761940864	bayes_pls_golite062009
structural molecule activity	0.347975812448725	bayes_pls_golite062009
glycine hydroxymethyltransferase activity	0.271623203801431	bayes_pls_golite062009
transcription factor activity	0.188693175079415	bayes_pls_golite062009
pyridoxal phosphate binding	0.16957228630576	bayes_pls_golite062009
vitamin B6 binding	0.16957228630576	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [16-298]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AQMPTPVLQQ AAKDLINFND IGLGIGEISH RSKDATKVIE DSKKHLIELL NIPDTHEVFY  60
   61 LQGGGTTGFS SVATNLAAAY VGKHGKIAPA GYLVTGSWSQ KSFEEAKRLH VPAEVIFNAK 120
  121 DYNNGKFGKI PDESLWEDKI KGKAFSYVYL CENETVHGVE WPELPKCLVN DPNIEIVADL 180
  181 SSDILSRKID VSQYGVIMAG AQKNIGLAGL TLYIIKKSIL KNISGASDET LHELGVPITP 240
  241 IAFDYPTVVK NNSAYNTIPI FTLHVMDLVF QHILKKGGVE AQQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	730.165202
Match:	1bjoA_
Description:	Phosphoserine aminotransferase, PSAT
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: