YRC Public Data Repository - Protein Structure Prediction

Protein:	MCM2
Organism:	Saccharomyces cerevisiae
Length:	868 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 MCM2.

Description	E-value	Query Range	Subject Range
gi\|190408848 - gi\|190408848\|gb\|EDV12113.1\| DNA replication licensing factor MCM2 [Saccharomyces cerevisiae RM11-1a] MCM2_YEAST - DNA replication licensing factor MCM2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MC... gi\|151946372 - gi\|151946372\|gb\|EDN64594.1\| minichromosome maintenance-related protein [Saccharomyces cerevisiae YJM... MCM2 - Protein involved in DNA replication; component of the Mcm2-7 hexameric complex that binds chromatin ...	0.0	[1..868]	[1..868]
gi\|434753 - gi\|434753\|dbj\|BAA04642.1\| KIAA0030 [Homo sapiens]	0.0	[15..865]	[14..832]
gi\|2183319 - gi\|2183319\|gb\|AAC16250.1\| BM28 homolog [Mus musculus]	0.0	[15..864]	[3..821]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[14..865]	[3..804]
MCM2_XENLA - (P55861) DNA replication licensing factor MCM2 (x.MCM2)	0.0	[14..865]	[3..804]
MCM2_ARATH - DNA replication licensing factor MCM2 OS=Arabidopsis thaliana GN=MCM2 PE=1 SV=1	0.0	[12..864]	[4..846]
MCM2_SCHPO - DNA replication licensing factor mcm2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=mcm2... mcm2 - MCM complex subunit Mcm2	0.0	[7..866]	[5..830]

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Predicted Domain #1

Region A:
Residues: [1-121]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDNRRRRRE EDDSDSENEL PPSSPQQHFR GGMNPVSSPI GSPDMINPEG DDNEVDDVPD  60
   61 IDEVEEQMNE VDLMDDNMYE DYAADHNRDR YDPDQVDDRE QQELSLSERR RIDAQLNERD 120
  121 R

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [122-175]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LLRNVAYIDD EDEEQEGAAQ LDEMGLPVQR RRRRRQYEDL ENSDDDLLSD MDID

[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.

Predicted functions:

Term	Confidence	Notes
nucleic acid binding	3.99127970564994	bayes_pls_golite062009
DNA binding	3.53568546959418	bayes_pls_golite062009
structural constituent of ribosome	3.51998515668903	bayes_pls_golite062009
structural molecule activity	3.29857127235306	bayes_pls_golite062009
structure-specific DNA binding	3.06066809614422	bayes_pls_golite062009
single-stranded DNA binding	3.0183551365402	bayes_pls_golite062009
binding	2.83465364476231	bayes_pls_golite062009
telomerase inhibitor activity	2.77979101622935	bayes_pls_golite062009
DNA replication origin binding	1.84819558112187	bayes_pls_golite062009
transcription regulator activity	1.84350127337404	bayes_pls_golite062009
telomeric DNA binding	1.7847835613194	bayes_pls_golite062009
single-stranded telomeric DNA binding	1.48033977789232	bayes_pls_golite062009
translation regulator activity	1.46320772716954	bayes_pls_golite062009
translation factor activity, nucleic acid binding	1.40718318783582	bayes_pls_golite062009
translation initiation factor activity	1.27539679024898	bayes_pls_golite062009
ribonuclease activity	1.19236946227657	bayes_pls_golite062009
DNA helicase activity	1.12203697857261	bayes_pls_golite062009
transcription factor activity	0.952569279670437	bayes_pls_golite062009
sequence-specific DNA binding	0.85691075793641	bayes_pls_golite062009
DNA-directed RNA polymerase activity	0.79554655100991	bayes_pls_golite062009
RNA polymerase activity	0.79554655100991	bayes_pls_golite062009
DNA-dependent ATPase activity	0.638831894247026	bayes_pls_golite062009
nuclease activity	0.57381531077345	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	0.474251377131502	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	0.47336621289748	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	0.47336621289748	bayes_pls_golite062009
nucleotidyltransferase activity	0.325774164899685	bayes_pls_golite062009
exonuclease activity	0.28313884527829	bayes_pls_golite062009
RNA binding	0.18502033889261	bayes_pls_golite062009
protein binding	0.152645195799531	bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters	0.125256208482441	bayes_pls_golite062009
exoribonuclease activity	0.109774918833391	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	0.0954216620147701	bayes_pls_golite062009
ATP-dependent DNA helicase activity	0.0179535526984695	bayes_pls_golite062009
helicase activity	0.0121541775159524	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [176-297]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PLREELTLES LSNVKANSYS EWITQPNVSR TIARELKSFL LEYTDETGRS VYGARIRTLG  60
   61 EMNSESLEVN YRHLAESKAI LALFLAKCPE EMLKIFDLVA MEATELHYPD YARIHSEIHV 120
  121 RI

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.817	0.008	pre-replicative complex assembly	a.118.11	Cytochrome c oxidase subunit E

Predicted functions:

Term	Confidence	Notes
DNA clamp loader activity	4.91429252297969	bayes_pls_golite062009
protein-DNA loading ATPase activity	4.80695929076807	bayes_pls_golite062009
DNA-dependent ATPase activity	2.72462789867829	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	2.66107861968804	bayes_pls_golite062009
binding	2.64537357529343	bayes_pls_golite062009
DNA helicase activity	2.2817164193758	bayes_pls_golite062009
nucleic acid binding	2.21184938313192	bayes_pls_golite062009
pyrophosphatase activity	2.13284212711072	bayes_pls_golite062009
DNA binding	1.94055378599526	bayes_pls_golite062009
ATP-dependent DNA helicase activity	1.88455339138556	bayes_pls_golite062009
transcription regulator activity	1.83584389083042	bayes_pls_golite062009
helicase activity	1.70242731830224	bayes_pls_golite062009
DNA replication origin binding	1.62491387774159	bayes_pls_golite062009
structural constituent of ribosome	1.47858140861683	bayes_pls_golite062009
microtubule motor activity	1.35938517416356	bayes_pls_golite062009
purine NTP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
ATP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
DNA-directed DNA polymerase activity	0.971476020912368	bayes_pls_golite062009
DNA polymerase activity	0.928091843881235	bayes_pls_golite062009
purine ribonucleotide binding	0.923452757551011	bayes_pls_golite062009
ribonucleotide binding	0.923391844349459	bayes_pls_golite062009
purine nucleotide binding	0.920821955769652	bayes_pls_golite062009
nucleotide binding	0.917754212279227	bayes_pls_golite062009
structural molecule activity	0.86514677273731	bayes_pls_golite062009
structure-specific DNA binding	0.782430219754236	bayes_pls_golite062009
transcription factor activity	0.697256579145077	bayes_pls_golite062009
motor activity	0.61636596887462	bayes_pls_golite062009
double-stranded DNA binding	0.6071273686445	bayes_pls_golite062009
ATP binding	0.60527666756293	bayes_pls_golite062009
adenyl ribonucleotide binding	0.573214556107072	bayes_pls_golite062009
adenyl nucleotide binding	0.554530910579109	bayes_pls_golite062009
translation regulator activity	0.29096092258568	bayes_pls_golite062009
translation factor activity, nucleic acid binding	0.274994961137851	bayes_pls_golite062009
RNA helicase activity	0.18426050934025	bayes_pls_golite062009
protein binding	0.170837278876362	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.147579541298736	bayes_pls_golite062009
RNA-dependent ATPase activity	0.14606996093053	bayes_pls_golite062009
ATP-dependent RNA helicase activity	0.13050483816765	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.113504049290503	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.111293884322157	bayes_pls_golite062009
3'-5' DNA helicase activity	0.0769112340058804	bayes_pls_golite062009
cytoskeletal protein binding	0.0272673919333979	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [298-477]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SDFPTIYSLR ELRESNLSSL VRVTGVVTRR TGVFPQLKYV KFNCLKCGSI LGPFFQDSNE  60
   61 EIRISFCTNC KSKGPFRVNG EKTVYRNYQR VTLQEAPGTV PPGRLPRHRE VILLADLVDV 120
  121 SKPGEEVEVT GIYKNNYDGN LNAKNGFPVF ATIIEANSIK RREGNTANEG EEGLDVFSWT 180
  181

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	7.221849
Match:	PF00493
Description:	MCM2/3/5 family

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #5

Region A:
Residues: [478-496]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EEEEREFRKI SRDRGIIDK

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [688-800]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DEEADERLAT FVVDSHVRSH PENDEDREGE ELKNNGESAI EQGEDEINEQ LNARQRRLQR  60
   61 QRKKEEEISP IPQELLMKYI HYARTKIYPK LHQMDMDKVS RVYADLRRES IST

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2.522879
Match:	1iqpA_
Description:	Replication factor C
Matching Structure (courtesy of the PDB):

Predicted Domain #6

Region A:
Residues: [497-687]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IISSMAPSIY GHRDIKTAVA CSLFGGVPKN VNGKHSIRGD INVLLLGDPG TAKSQILKYV  60
   61 EKTAHRAVFA TGQGASAVGL TASVRKDPIT KEWTLEGGAL VLADKGVCLI DEFDKMNDQD 120
  121 RTSIHEAMEQ QSISISKAGI VTTLQARCSI IAAANPNGGR YNSTLPLAQN VSLTEPILSR 180
  181 FDILCVVRDL V

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2.522879
Match:	1iqpA_
Description:	Replication factor C
Matching Structure (courtesy of the PDB):

Predicted Domain #7

Region A:
Residues: [801-868]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GSFPITVRHL ESILRIAESF AKMRLSEFVS SYDLDRAIKV VVDSFVDAQK VSVRRQLRRS  60
   61 FAIYTLGH

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident 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

Predicted functions:

Predicted functions: