YRC Public Data Repository - Protein Structure Prediction

Protein:	MSH3
Organism:	Saccharomyces cerevisiae
Length:	1047 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 MSH3.

Description	E-value	Query Range	Subject Range
gi\|151943902 - gi\|151943902\|gb\|EDN62202.1\| MutS-like protein [Saccharomyces cerevisiae YJM789] MSH3 - Mismatch repair protein, forms dimers with Msh2p that mediate repair of insertion or deletion mutati...	0.0	[1..1047]	[1..1047]
gi\|447739 - gi\|447739\|prf\|\|1915304A nylB upstream ORF	0.0	[1..1047]	[1..1046]
gi\|125617373, gi... - gi\|75829241\|ref\|ZP_00758551.1\| COG0249: Mismatch repair ATPase (MutS family) [Vibrio cholerae MO10],... gi\|229353916, gi... - gi\|229508991\|ref\|ZP_04398479.1\| DNA mismatch repair protein MutS [Vibrio cholerae B33], gi\|229353916... MUTS_VIBCH - DNA mismatch repair protein mutS OS=Vibrio cholerae GN=mutS PE=3 SV=1 MUTS_VIBCH - DNA mismatch repair protein MutS OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N1... gi\|75815683 - gi\|75815683\|ref\|ZP_00746180.1\| COG0249: Mismatch repair ATPase (MutS family) [Vibrio cholerae V52] MUTS_VIBCM - DNA mismatch repair protein MutS OS=Vibrio cholerae serotype O1 (strain M66-2) GN=mutS PE=3 SV=1 gi\|229507146, gi... - gi\|229507146\|ref\|ZP_04396652.1\| DNA mismatch repair protein MutS [Vibrio cholerae BX 330286], gi\|229... gi\|229344348, gi... - gi\|229519659\|ref\|ZP_04409102.1\| DNA mismatch repair protein MutS [Vibrio cholerae RC9], gi\|229344348... MUTS_VIBC3 - DNA mismatch repair protein MutS OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa... gi\|153223827, gi... - gi\|153223827\|ref\|ZP_01954082.1\| DNA mismatch repair protein MutS [Vibrio cholerae MAK 757], gi\|12411... gi\|126510344, gi... - gi\|153819112\|ref\|ZP_01971779.1\| DNA mismatch repair protein MutS [Vibrio cholerae NCTC 8457], gi\|126...	0.0	[148..1044]	[2..858]
gi\|22124746, gi\|... - gi\|22124746\|ref\|NP_668169.1\| DNA mismatch repair protein [Yersinia pestis KIM], gi\|21957565\|gb\|AAM84... gi\|218930372, gi... - gi\|218930372\|ref\|YP_002348247.1\| DNA mismatch repair protein MutS [Yersinia pestis CO92], gi\|1612350... gi\|45435046, gi\|... - gi\|45440190\|ref\|NP_991729.1\| DNA mismatch repair protein [Yersinia pestis biovar Microtus str. 91001... MUTS_YERPG - DNA mismatch repair protein MutS OS=Yersinia pestis bv. Antiqua (strain Angola) GN=mutS PE=3 SV=1 gi\|167469363 - gi\|167469363\|ref\|ZP_02334067.1\| DNA mismatch repair protein MutS [Yersinia pestis FV-1] gi\|167423797, gi... - gi\|167423797\|ref\|ZP_02315550.1\| DNA mismatch repair protein MutS [Yersinia pestis biovar Mediaevalis... gi\|149289239, gi... - gi\|153997602\|ref\|ZP_02022702.1\| DNA mismatch repair protein MutS [Yersinia pestis CA88-4125], gi\|149... MUTS_YERPP - DNA mismatch repair protein MutS OS=Yersinia pestis (strain Pestoides F) GN=mutS PE=3 SV=1 gi\|166010151, gi... - gi\|166010151\|ref\|ZP_02231049.1\| DNA mismatch repair protein MutS [Yersinia pestis biovar Antiqua str... MUTS_YERPE - DNA mismatch repair protein MutS OS=Yersinia pestis GN=mutS PE=3 SV=1 gi\|165922488, gi... - gi\|165925876\|ref\|ZP_02221708.1\| DNA mismatch repair protein MutS [Yersinia pestis biovar Orientalis ... gi\|229695346, gi... - gi\|229838980\|ref\|ZP_04459139.1\| methyl-directed mismatch repair protein [Yersinia pestis biovar Orie... gi\|167421538, gi... - gi\|167421538\|ref\|ZP_02313291.1\| DNA mismatch repair protein MutS [Yersinia pestis biovar Orientalis ... gi\|229687039, gi... - gi\|229899547\|ref\|ZP_04514688.1\| methyl-directed mismatch repair protein [Yersinia pestis biovar Orie... gi\|166205736, gi... - gi\|166212949\|ref\|ZP_02238984.1\| DNA mismatch repair protein MutS [Yersinia pestis biovar Antiqua str... gi\|165936708, gi... - gi\|89105881\|ref\|ZP_01178393.1\| COG0249: Mismatch repair ATPase (MutS family) [Yersinia pestis biovar... MUTS_YERPN - DNA mismatch repair protein MutS OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=mutS PE=3 SV=1	0.0	[155..1041]	[4..830]
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	[151..1045]	[2..837]
gi\|254594075, gi... - gi\|254794675\|ref\|YP_003079512.1\| methyl-directed mismatch repair protein [Escherichia coli O157:H7 s... gi\|208739537, gi... - gi\|208819414\|ref\|ZP_03259734.1\| DNA mismatch repair protein MutS [Escherichia coli O157:H7 str. EC40... gi\|208735412, gi... - gi\|208814135\|ref\|ZP_03255464.1\| DNA mismatch repair protein MutS [Escherichia coli O157:H7 str. EC40... MUTS_ECO8A - DNA mismatch repair protein MutS OS=Escherichia coli O8 (strain IAI1) GN=mutS PE=3 SV=1 MUTS_ECO5E - DNA mismatch repair protein MutS OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=mutS PE=3 SV=... gi\|192957000, gi... - gi\|193069637\|ref\|ZP_03050589.1\| DNA mismatch repair protein MutS [Escherichia coli E110019], gi\|1929... gi\|191166787, gi... - gi\|191166787\|ref\|ZP_03028613.1\| DNA mismatch repair protein MutS [Escherichia coli B7A], gi\|19090315... gi\|208807935, gi... - gi\|208807935\|ref\|ZP_03250272.1\| DNA mismatch repair protein MutS [Escherichia coli O157:H7 str. EC42... gi\|195938486 - gi\|195938486\|ref\|ZP_03083868.1\| DNA mismatch repair protein [Escherichia coli O157:H7 str. EC4024] gi\|15832843, gi\|... - gi\|15832843\|ref\|NP_311616.1\| DNA mismatch repair protein MutS [Escherichia coli O157:H7 str. Sakai],... gi\|168787991, gi... - gi\|189372119\|gb\|EDU90535.1\| DNA mismatch repair protein MutS [Escherichia coli O157:H7 str. EC869], ... gi\|168778718, gi... - gi\|189003145\|gb\|EDU72131.1\| DNA mismatch repair protein MutS [Escherichia coli O157:H7 str. EC4076],... gi\|188493251, gi... - gi\|188493251\|ref\|ZP_03000521.1\| DNA mismatch repair protein MutS [Escherichia coli 53638], gi\|188488... gi\|189377459, gi... - gi\|189377459\|gb\|EDU95875.1\| DNA mismatch repair protein MutS [Escherichia coli O157:H7 str. EC508], ... gi\|189357264, gi... - gi\|189357264\|gb\|EDU75683.1\| DNA mismatch repair protein MutS [Escherichia coli O157:H7 str. EC4401],... gi\|188015814, gi... - gi\|188015814\|gb\|EDU53936.1\| DNA mismatch repair protein MutS [Escherichia coli O157:H7 str. EC4113],... gi\|168774732, gi... - gi\|187769600\|gb\|EDU33444.1\| DNA mismatch repair protein MutS [Escherichia coli O157:H7 str. EC4196],... gi\|168768827, gi... - gi\|189362111\|gb\|EDU80530.1\| DNA mismatch repair protein MutS [Escherichia coli O157:H7 str. EC4486],... MUTS_ECO57 - DNA mismatch repair protein MutS OS=Escherichia coli O157:H7 GN=mutS PE=3 SV=1 gi\|25317150, gi\|... - gi\|4887554\|emb\|CAB43497.1\| mismatch repair protein [Escherichia coli], pir\|\|E91077 MutS protein [imp...	0.0	[158..1045]	[7..835]
gi\|12517186, gi\|... - gi\|15803252\|ref\|NP_289284.1\| DNA mismatch repair protein [Escherichia coli O157:H7 EDL933], gi\|12517... gi\|25317161 - gi\|25317161\|pir\|\|F85922 methyl-directed mismatch repair [imported] - Escherichia coli (strain O157:H...	0.0	[158..1045]	[7..835]
EG10625 - methyl-directed mismatch repair protein / Methyl-directed mismatch repair protein, weak ATPase; dime... MUTS_ECOHS - DNA mismatch repair protein MutS OS=Escherichia coli O9:H4 (strain HS) GN=mutS PE=3 SV=1 gi\|124500877, gi... - gi\|124527985\|ref\|ZP_01699338.1\| DNA mismatch repair protein MutS [Escherichia coli B], gi\|124500877\|... MUTS_ECOLC - DNA mismatch repair protein MutS OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=mutS ... gi\|85675554, gi\|... - gi\|89109520\|ref\|AP_003300.1\| methyl-directed mismatch repair protein [Escherichia coli str. K-12 sub... MUTS_ECODH - DNA mismatch repair protein MutS OS=Escherichia coli (strain K12 / DH10B) GN=mutS PE=3 SV=1 gi\|194438950, gi... - gi\|194438950\|ref\|ZP_03071034.1\| DNA mismatch repair protein MutS [Escherichia coli 101-1], gi\|194422... gi\|254289425, gi... - gi\|254289425\|ref\|YP_003055173.1\| DNA mismatch repair protein [Escherichia coli BL21(DE3)], gi\|253978... gi\|253974565, gi... - gi\|254162664\|ref\|YP_003045772.1\| DNA mismatch repair protein [Escherichia coli B str. REL606], gi\|25... MUTS_ECOLI - DNA mismatch repair protein mutS - Escherichia coli MUTS_ECOBW - DNA mismatch repair protein MutS OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=mutS PE=3 SV=... EG10625 - methyl-directed mismatch repair protein / Methyl-directed mismatch repair protein, weak ATPase; dime... gi\|242378289, gi... - gi\|251786016\|ref\|YP_003000320.1\| hypothetical protein B21_02548 [Escherichia coli BL21], gi\|24237828...	0.0	[158..1045]	[7..835]
MUTS_HAEIN - DNA mismatch repair protein mutS OS=Haemophilus influenzae GN=mutS PE=3 SV=1 MUTS_HAEIN - DNA mismatch repair protein MutS OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / R...	0.0	[153..1046]	[2..844]
MUTS_AZOVI - DNA mismatch repair protein MutS OS=Azotobacter vinelandii GN=mutS PE=3 SV=1	0.0	[156..1042]	[2..849]

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Predicted Domain #1

Region A:
Residues: [1-116]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVIGNEPKLV LLRAKSSANR FILLNLLTIM AGQPTISRFF KKAVKSELTH KQEQEVAVGN  60
   61 GAGSESICLD TDEEDNLSSV ASTTVTNDSF PLKGSVSSKN SKNSEKTSGT STTFND

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.603	a.118.8	TPR-like
View	Download	0.516	a.27.1	Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
View	Download	0.610	c.24.1	Methylglyoxal synthase-like
View	Download	0.646	a.13.1	alpha-2-Macroglobulin receptor associated protein (RAP) domain 1
View	Download	0.489	f.36.1	Neurotransmitter-gated ion-channel pransmembrane pore
View	Download	0.430	a.24.4	Hemerythrin
View	Download	0.403	a.100.1	6-phosphogluconate dehydrogenase C-terminal domain-like
View	Download	0.387	a.62.1	Hepatitis B viral capsid (hbcag)
View	Download	0.375	f.14.1	Voltage-gated potassium channels
View	Download	0.366	a.24.10	Histidine-containing phosphotransfer domain, HPT domain
View	Download	0.361	a.52.1	Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin
View	Download	0.348	a.118.8	TPR-like
View	Download	0.332	d.109.1	Actin depolymerizing proteins
View	Download	0.323	a.71.1	Endoplasmic reticulum protein ERP29, C-domain
View	Download	0.316	a.4.3	ARID-like
View	Download	0.310	f.36.1	Neurotransmitter-gated ion-channel pransmembrane pore
View	Download	0.306	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.301	a.23.4	Mitochondrial import receptor subunit Tom20
View	Download	0.300	d.109.1	Actin depolymerizing proteins
View	Download	0.292	a.118.9	ENTH/VHS domain
View	Download	0.291	a.4.9	Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3
View	Download	0.291	a.24.17	Group V grass pollen allergen
View	Download	0.288	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.282	a.118.9	ENTH/VHS domain
View	Download	0.271	a.27.1	Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
View	Download	0.269	d.110.1	Profilin (actin-binding protein)
View	Download	0.264	d.52.4	YhbC-like, N-terminal domain
View	Download	0.263	a.181.1	Antibiotic binding domain of TipA-like multidrug resistance regulators
View	Download	0.258	a.7.6	Ribosomal protein S20
View	Download	0.248	a.46.1	Methionine synthase domain
View	Download	0.248	a.80.1	DNA polymerase III clamp loader subunits, C-terminal domain
View	Download	0.237	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.232	c.2.1	NAD(P)-binding Rossmann-fold domains
View	Download	0.232	a.59.1	PAH2 domain
View	Download	0.230	c.48.1	TK C-terminal domain-like
View	Download	0.229	d.58.1	4Fe-4S ferredoxins
View	Download	0.228	a.23.1	HSC20 (HSCB), C-terminal oligomerisation domain
View	Download	0.228	d.53.1	Ribosomal protein S3 C-terminal domain
View	Download	0.227	a.29.3	Acyl-CoA dehydrogenase C-terminal domain-like
View	Download	0.219	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.210	d.50.1	dsRNA-binding domain-like
View	Download	0.209	d.58.18	Regulatory domain in the aminoacid metabolism

Predicted Domain #2

Region A:
Residues: [117-281]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IDFAKKLDRI MKRRSDENVE AEDDEEEGEE DFVKKKARKS PTAKLTPLDK QVKDLKMHHR  60
   61 DKVLVIRVGY KYKCFAEDAV TVSRILHIKL VPGKLTIDES NPQDCNHRQF AYCSFPDVRL 120
  121 NVHLERLVHH NLKVAVVEQA ETSAIKKHDP GASKSSVFER KISNV

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1510.457575
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: [282-444]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FTKATFGVNS TFVLRGKRIL GDTNSIWALS RDVHQGKVAK YSLISVNLNN GEVVYDEFEE  60
   61 PNLADEKLQI RIKYLQPIEV LVNTDDLPLH VAKFFKDISC PLIHKQEYDL EDHVVQAIKV 120
  121 MNEKIQLSPS LIRLVSKLYS HMVEYNNEQV MLIPSIYSPF ASK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1510.457575
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: [445-467]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IHMLLDPNSL QSLDIFTHDG GKG

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [768-1047]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 CNVNYVRPTF VNGQQAIIAK NARNPIIESL DVHYVPNDIM MSPENGKINI ITGPNMGGKS  60
   61 SYIRQVALLT IMAQIGSFVP AEEIRLSIFE NVLTRIGAHD DIINGDSTFK VEMLDILHIL 120
  121 KNCNKRSLLL LDEVGRGTGT HDGIAISYAL IKYFSELSDC PLILFTTHFP MLGEIKSPLI 180
  181 RNYHMDYVEE QKTGEDWMSV IFLYKLKKGL TYNSYGMNVA KLARLDKDII NRAFSISEEL 240
  241 RKESINEDAL KLFSSLKRIL KSDNITATDK LAKLLSLDIH

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1510.457575
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: [468-632]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SLFWLLDHTR TSFGLRMLRE WILKPLVDVH QIEERLDAIE CITSEINNSI FFESLNQMLN  60
   61 HTPDLLRTLN RIMYGTTSRK EVYFYLKQIT SFVDHFKMHQ SYLSEHFKSS DGRIGKQSPL 120
  121 LFRLFSELNE LLSTTQLPHF LTMINVSAVM EKNSDKQVMD FFNLN

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [720-767]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YYKDLLIRES ELQYKEFLNK ITAEYTELRK ITLNLAQYDC ILSLAATS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1510.457575
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: [633-719]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NYDCSEGIIK IQRESESVRS QLKEELAEIR KYLKRPYLNF RDEVDYLIEV KNSQIKDLPD  60
   61 DWIKVNNTKM VSRFTTPRTQ KLTQKLE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1510.457575
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):

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