YRC Public Data Repository - Protein Structure Prediction

Protein:	MSH2
Organism:	Saccharomyces cerevisiae
Length:	964 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 MSH2.

Description	E-value	Query Range	Subject Range
MSH2_YEAST - DNA mismatch repair protein MSH2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MSH2 PE... MSH2 - Protein that forms heterodimers with Msh3p and Msh6p that bind to DNA mismatches to initiate the mis...	0.0	[1..964]	[1..964]
gi\|224487757, gi... - gi\|224487757\|dbj\|BAH24113.1\| mutS homolog 2, colon cancer, nonpolyposis type 1 [synthetic construct]... MSH2 - mutS homolog 2, colon cancer, nonpolyposis type 1 (E. coli)	0.0	[3..960]	[2..931]
MSH2_MOUSE - DNA mismatch repair protein Msh2 OS=Mus musculus GN=Msh2 PE=1 SV=1	0.0	[3..960]	[2..931]
MSH2_RAT - DNA mismatch repair protein Msh2 OS=Rattus norvegicus GN=Msh2 PE=2 SV=1	0.0	[3..960]	[2..931]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[3..887]	[2..859]
gi\|15625578, gi\|... - ref\|NP_999943.1\| mismatch repair protein Msh2 [Danio rerio], gi\|15625578\|gb\|AAL04169.1\|AF412833_1 mi...	0.0	[3..958]	[2..927]
gi\|205324663, gi... - gi\|205324663\|gb\|EDZ12502.1\| DNA mismatch repair protein MutS [Salmonella enterica subsp. enterica se... gi\|167993148, gi... - gi\|205328749\|gb\|EDZ15513.1\| DNA mismatch repair protein MutS [Salmonella enterica subsp. enterica se... gi\|168242649, gi... - gi\|205338197\|gb\|EDZ24961.1\| DNA mismatch repair protein MutS [Salmonella enterica subsp. enterica se... MUTS_SALCH - DNA mismatch repair protein MutS OS=Salmonella choleraesuis (strain SC-B67) GN=mutS PE=3 SV=1 lcl\|NC_016856.1_... - [gene=mutS] [protein=DNA mismatch repair protein] [protein_id=YP_005239020.1] [location=3070516..307... MUTS_SALTY - DNA mismatch repair protein mutS OS=Salmonella typhimurium GN=mutS PE=1 SV=1 MUTS_SALCH - DNA mismatch repair protein mutS OS=Salmonella choleraesuis GN=mutS PE=3 SV=1 MUTS_SALCH - DNA mismatch repair protein mutS OS=Salmonella choleraesuis GN=mutS PE=3 SV=1 MUTS_SALTI - DNA mismatch repair protein MutS OS=Salmonella typhi GN=mutS PE=3 SV=1 MUTS_SALG2 - DNA mismatch repair protein MutS OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=mutS PE=3 ... MUTS_SALTY - DNA mismatch repair protein MutS OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=... gi\|213854165 - gi\|213854165\|ref\|ZP_03382697.1\| DNA mismatch repair protein [Salmonella enterica subsp. enterica ser... MUTS_SALTY - DNA mismatch repair protein mutS OS=Salmonella typhimurium GN=mutS PE=1 SV=1 MUTS_SALPB - DNA mismatch repair protein mutS OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=mutS PE=... MUTS_SALPB - DNA mismatch repair protein MutS OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=mutS PE=... MUTS_SALTI - DNA mismatch repair protein mutS OS=Salmonella typhi GN=mutS PE=3 SV=1 gi\|168463951, gi... - gi\|195633763\|gb\|EDX52177.1\| DNA mismatch repair protein MutS [Salmonella enterica subsp. enterica se... MUTS_SALHS - DNA mismatch repair protein MutS OS=Salmonella heidelberg (strain SL476) GN=mutS PE=3 SV=1 gi\|29143167, gi\|... - gi\|29143167\|ref\|NP_806509.1\| DNA mismatch repair protein [Salmonella enterica subsp. enterica serova... MUTS_SALA4 - DNA mismatch repair protein MutS OS=Salmonella agona (strain SL483) GN=mutS PE=3 SV=1 gi\|16761683 - gi\|16761683\|ref\|NP_457300.1\| DNA mismatch repair protein [Salmonella enterica subsp. enterica serova... gi\|197240275, gi... - gi\|197262020\|ref\|ZP_03162094.1\| DNA mismatch repair protein MutS [Salmonella enterica subsp. enteric...	0.0	[11..937]	[7..854]

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Predicted Domain #1

Region A:
Residues: [1-118]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSTRPELKF SDVSEERNFY KKYTGLPKKP LKTIRLVDKG DYYTVIGSDA IFVADSVYHT  60
   61 QSVLKNCQLD PVTAKNFHEP TKYVTVSLQV LATLLKLCLL DLGYKVEIYD KGWKLIKS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1573.9794
Match:	1e3mA_
Description:	DNA repair protein MutS, domain III; DNA repair protein MutS, the C-terminal domain; DNA repair protein MutS, domain II; DNA repair protein MutS, domain I
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [119-292]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ASPGNIEQVN ELMNMNIDSS IIIASLKVQW NSQDGNCIIG VAFIDTTAYK VGMLDIVDNE  60
   61 VYSNLESFLI QLGVKECLVQ DLTSNSNSNA EMQKVINVID RCGCVVTLLK NSEFSEKDVE 120
  121 LDLTKLLGDD LALSLPQKYS KLSMGACNAL IGYLQLLSEQ DQVGKYELVE HKLK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1573.9794
Match:	1e3mA_
Description:	DNA repair protein MutS, domain III; DNA repair protein MutS, the C-terminal domain; DNA repair protein MutS, domain II; DNA repair protein MutS, domain I
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [293-336]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EFMKLDASAI KALNLFPQGP QNPFGSNNLA VSGFTSAGNS GKVT

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [631-883]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SYAPIPYIRP KLHPMDSERR THLISSRHPV LEMQDDISFI SNDVTLESGK GDFLIITGPN  60
   61 MGGKSTYIRQ VGVISLMAQI GCFVPCEEAE IAIVDAILCR VGAGDSQLKG VSTFMVEILE 120
  121 TASILKNASK NSLIIVDELG RGTSTYDGFG LAWAIAEHIA SKIGCFALFA THFHELTELS 180
  181 EKLPNVKNMH VVAHIEKNLK EQKHDDEDIT LLYKVEPGIS DQSFGIHVAE VVQFPEKIVK 240
  241 MAKRKANELD DLK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1573.9794
Match:	1e3mA_
Description:	DNA repair protein MutS, domain III; DNA repair protein MutS, the C-terminal domain; DNA repair protein MutS, domain II; DNA repair protein MutS, domain I
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [337-503]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SLFQLLNHCK TNAGVRLLNE WLKQPLTNID EINKRHDLVD YLIDQIELRQ MLTSEYLPMI  60
   61 PDIRRLTKKL NKRGNLEDVL KIYQFSKRIP EIVQVFTSFL EDDSPTEPVN ELVRSVWLAP 120
  121 LSHHVEPLSK FEEMVETTVD LDAYEENNEF MIKVEFNEEL GKIRSKL

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [583-630]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ILQKEYDKQQ SALVREIINI TLTYTPVFEK LSLVLAHLDV IASFAHTS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1573.9794
Match:	1e3mA_
Description:	DNA repair protein MutS, domain III; DNA repair protein MutS, the C-terminal domain; DNA repair protein MutS, domain II; DNA repair protein MutS, domain I
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [504-582]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DTLRDEIHSI HLDSAEDLGF DPDKKLKLEN HHLHGWCMRL TRNDAKELRK HKKYIELSTV  60
   61 KAGIFFSTKQ LKSIANETN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1573.9794
Match:	1e3mA_
Description:	DNA repair protein MutS, domain III; DNA repair protein MutS, the C-terminal domain; DNA repair protein MutS, domain II; DNA repair protein MutS, domain I
Matching Structure (courtesy of the PDB):

Predicted Domain #6

Region A:
Residues: [884-964]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TNNEDLKKAK LSLQEVNEGN IRLKALLKEW IRKVKEEGLH DPSKITEEAS QHKIQELLRA  60
   61 IANEPEKEND NYLKYIKALL L

[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.

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