YRC Public Data Repository - Protein Structure Prediction

Protein:	RIM15
Organism:	Saccharomyces cerevisiae
Length:	1770 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 RIM15.

Description	E-value	Query Range	Subject Range
RIM15 - Glucose-repressible protein kinase involved in signal transduction during cell proliferation in resp... RIM15_YEAST - Serine/threonine-protein kinase RIM15 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RI...	0.0	[1..1770]	[1..1770]
gi\|9844082 - gi\|9844082\|emb\|CAC03748.1\| cAMP-dependent protein kinase catalytic subunit [Botryotinia fuckeliana]	0.0	[324..1057]	[70..785]
gi\|13537204, gi\|... - gi\|14149671\|ref\|NP_055927.1\| microtubule associated serine/threonine kinase 2 [Homo sapiens], gi\|135...	0.0	[924..1569]	[440..1076]
cek1 - serine /threonine protein kinase Cek1 CEK1_SCHPO - Serine/threonine-protein kinase cek1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=cek1 ...	0.0	[38..643]	[27..587]
gi\|1853976 - gi\|1853976\|dbj\|BAA06551.1\| protein kinase [Schizosaccharomyces pombe]	0.0	[38..643]	[27..587]
MAST2_MOUSE - Microtubule-associated serine/threonine-protein kinase 2 OS=Mus musculus GN=Mast2 PE=1 SV=1	0.0	[924..1569]	[381..1014]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[976..1569]	[2..593]

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Predicted Domain #1

Region A:
Residues: [1-403]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFNRSNTAGG SQAMKEGLGI NKLSPISSNS NPSSLTSSNY EKYLQLATEK NPCMILELEL  60
   61 DGKVRYGSPQ WNTITGVADD SGSSPTYIAD LILGSDQDKG VFQKATDMLL MNDDTSCTIT 120
  121 FKIKAADYEG SAGCDDESTI TTLEARGILI RDGHTQLPSH TMWIVKPRTN DWSDFYANED 180
  181 AQDDMVIQLS DNCDDIDIQL PEEFAKTLGF GAKIFVQYLK RIRLEMIIDE FNLPLPKMEL 240
  241 CRVCENFVPV WWLETHSQSC VCEHRTESLI QLLHDNLLEQ QAILANFTKD SEYKGSQIQV 300
  301 RSNNFLNQVL DSLRELCQDA IDINPSEMVP DLYHSLSTFP QDNGNNNNNN NNNNNNNNAL 360
  361 LDQFPIQKDT VSLNSYFQFS PRTNHNIQNV TSWQSRFFLN DDQ

[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
binding	3.0194696248926	bayes_pls_golite062009
transcription regulator activity	2.49476861948897	bayes_pls_golite062009
DNA binding	2.19545186072108	bayes_pls_golite062009
nucleic acid binding	2.12699172468275	bayes_pls_golite062009
transcription factor activity	1.6875078525856	bayes_pls_golite062009
protein kinase activity	1.64278494326255	bayes_pls_golite062009
protein binding	1.60673447924806	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	1.34369087457971	bayes_pls_golite062009
kinase activity	1.27787411134399	bayes_pls_golite062009
transcription factor binding	1.27388174012263	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	1.26593567694405	bayes_pls_golite062009
protein heterodimerization activity	0.865848090169615	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.859295384298456	bayes_pls_golite062009
transcription activator activity	0.76752398979286	bayes_pls_golite062009
sequence-specific DNA binding	0.5476536728695	bayes_pls_golite062009
transferase activity	0.534003294436004	bayes_pls_golite062009
protein dimerization activity	0.3832620238984	bayes_pls_golite062009
histone acetyltransferase binding	0.288153410088245	bayes_pls_golite062009
transcription cofactor activity	0.092160501773862	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [404-785]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DPGLALLIHD TLDLARKKVD AVLRLDNAMT YSLKIKNEVN NYVVQLIREQ IEINKHAILT  60
   61 HPMNLRSSSI FHSPLPQIHS QQPEAENLIY SSSTPLQVQH DQCASFEAPS KSHLEPIPFP 120
  121 VSSIEETPTA NDIRHPSPLP RSCSNTVMKL PTPRRKLDSN GLFSDAYLNA DIIPNPSIES 180
  181 TISIDRDNNT NSRGSSMKQY GIGEATDSRT SNSERPSSSS SRLGIRSRSI TPRQKIEYSH 240
  241 VDNDDRTNEM LSRDKDSLQP QPSVDTTITS STQATTTGTK TNSNNSTNSV LPKLMTSISL 300
  301 TPRRGSPSFG NLASHSMQQT NSFKLIHDKS PISSPFTFSK DFLTPEQHPS NIARTDSINN 360
  361 AMLTSPNMPL SPLLLATNQT VK

[Run NCBI BLAST on this sequence.]

Detection Method:	ORFEUS
Confidence:	11.24
Match:	1i3qA
Description:	RBP1
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [786-980]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SPTPSIKDYD ILKPISKGAY GSVYLARKKL TGDYFAIKVL RKSDMIAKNQ VTNVKSERAI  60
   61 MMVQSDKPYV ARLFASFQNK DNLFLVMEYL PGGDLATLIK MMGYLPDQWA KQYLTEIVVG 120
  121 VNDMHQNGII HHDLKPENLL IDNAGHVKLT DFGLSRAGLI RRHKFVPHKS SLSISSTLPI 180
  181 DNPANNFTMN NNNSN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	166.156545
Match:	1lg3A_
Description:	No description for 1lg3A_ was found.

Predicted Domain #4

Region A:
Residues: [981-1036]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HSQLSTPDSF TSDHKQYNRS KKSSLGQQYE HSEYSSTSNS HSMTPTPSTN TVVYPS

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [1050-1067]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IDLPASLRRS ESQLSFSL

[Run NCBI BLAST on this sequence.]

Region C:
Residues: [1273-1340]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IDNPEDTDYF DLRGAELQDF GDDIENDNAN ILFGKHGINT DVSELSAANL SPPLNHKNIL  60
   61 SRKLSMSN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	396.0103
Match:	1fotA_
Description:	cAMP-dependent PK, catalytic subunit
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [1037-1049]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YYRGKDRSHG SSN

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [1068-1272]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LDISRSSTPP LANPTNSNAN NIMRRKSLTE NKSFSNDLLS SDAIAATNTN INSNNNISLS  60
   61 PAPSDLALFY PDDSKQNKKF FGTPDYLAPE TIEGKGEDNK QCDWWSVGCI FFELLLGYPP 120
  121 FHAETPDAVF KKILSGVIQW PEFKNEEEER EFLTPEAKDL IEKLLVVDPA KRLGAKGIQE 180
  181 IKDHPYFKNV DWDHVYDEEA SFVPT

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	396.0103
Match:	1fotA_
Description:	cAMP-dependent PK, catalytic subunit
Matching Structure (courtesy of the PDB):

Predicted Domain #6

Region A:
Residues: [1341-1770]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TTNRSSNNSN SSVHDFGAHT PVNKLSIASV LESVPQETGY ITPNGTGTTT TSAKNSPNLK  60
   61 NLSLAIPPHM RDRRSSKLND SQTEFGSFNF RNLSALDKAN KDAINRLKSE HFSEQPGVHR 120
  121 RTSSASLMGS SSDGSVSTPG SNASNTTSGG KLKIHKPTIS GSPSTFGTFP KTFLRSDSFS 180
  181 TRSYSPERSI SIDSSTLSRK GSIIGDNQQT TANSSDSPTM TKFKSPLSPA NTTTVSSYFS 240
  241 RQRVLSKSFS QRTNSSDLSA EESDRLQAIS RVNSLRNRRR SGRKSSSTSE IGYHMDVLVC 300
  301 EPIPIHRYRV TKDLENLGCT VVSVGAGDEL VSRATSGVSF DLIMTALKLP KLGAIDIVQL 360
  361 LKQTNGANST TPIVAITNYF QEAATSRVFD DVLEKPVKLD ELKKLVAKYA LKKSQEDEEH 420
  421 TILSDSDETH

[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 Domain #7

Region A:
Residues: [1323-1597]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SPPLNHKNIL SRKLSMSNTT NRSSNNSNSS VHDFGAHTPV NKLSIASVLE SVPQETGYIT  60
   61 PNGTGTTTTS AKNSPNLKNL SLAIPPHMRD RRSSKLNDSQ TEFGSFNFRN LSALDKANKD 120
  121 AINRLKSEHF SEQPGVHRRT SSASLMGSSS DGSVSTPGSN ASNTTSGGKL KIHKPTISGS 180
  181 PSTFGTFPKT FLRSDSFSTR SYSPERSISI DSSTLSRKGS IIGDNQQTTA NSSDSPTMTK 240
  241 FKSPLSPANT TTVSSYFSRQ RVLSKSFSQR TNSSD

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.08
Match:	2c2aA
Description:	Structure of the entire cytoplasmic portion of a sensor histidine kinase protein
Matching Structure (courtesy of the PDB):

Predicted Domain #8

Region A:
Residues: [1598-1770]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LSAEESDRLQ AISRVNSLRN RRRSGRKSSS TSEIGYHMDV LVCEPIPIHR YRVTKDLENL  60
   61 GCTVVSVGAG DELVSRATSG VSFDLIMTAL KLPKLGAIDI VQLLKQTNGA NSTTPIVAIT 120
  121 NYFQEAATSR VFDDVLEKPV KLDELKKLVA KYALKKSQED EEHTILSDSD ETH

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	4.68
Match:	2ayxA
Description:	No description for 2ayxA was found.

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: