YRC Public Data Repository - Protein Structure Prediction

Protein:	SPT5
Organism:	Saccharomyces cerevisiae
Length:	1063 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 SPT5.

Description	E-value	Query Range	Subject Range
SPT5 - Protein involved in regulating Pol I and Pol II transcription and pre-mRNA processing; forms a compl... SPT5_YEAST - Transcription elongation factor SPT5 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SPT...	0.0	[1..1063]	[1..1063]
gi\|2723380 - gi\|2723380\|dbj\|BAA24075.1\| DSIF p160 [Homo sapiens]	0.0	[107..1062]	[2..971]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[107..1062]	[2..965]
SPT5H_DANRE - Transcription elongation factor SPT5 OS=Danio rerio GN=supt5h PE=1 SV=1	0.0	[107..1060]	[2..967]
SPT52_ARATH - Putative transcription elongation factor SPT5 homolog 2 OS=Arabidopsis thaliana GN=At2g34210 PE=2 SV...	0.0	[123..1025]	[5..886]
gi\|17861616 - gi\|17861616\|gb\|AAL39285.1\| GH15359p [Drosophila melanogaster]	0.0	[490..917]	[1..427]
gi\|19074993, gi\|... - gi\|19074993\|ref\|NP_586499.1\| similarity to putative transcription factor SPT5 [Encephalitozoon cunic... gi\|19074993 - gi\|19074993\|ref\|NP_586499.1\| similarity to putative transcription factor SPT5 [Encephalitozoon cunic...	4.0E-87	[210..636]	[11..359]
gi\|3236370 - gi\|3236370\|gb\|AAC23667.1\| type VI collagen alpha 3 subunit [Mus musculus]	6.0E-70	[715..1030]	[1423..1761]

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Predicted Domain #1

Region A:
Residues: [1-232]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDNSDTNVS MQDHDQQFAD PVVVPQSTDT KDENTSDKDT VDSGNVTTTE STERAESTSN  60
   61 IPPLDGEEKE AKSEPQQPED NAETAATEQV SSSNGPATDD AQATLNTDSS EANEIVKKEE 120
  121 GSDERKRPRE EDTKNSDGDT KDEGDNKDED DDEDDDDDDD DEDDDDEAPT KRRRQERNRF 180
  181 LDIEAEVSDD EDEDEDEEDS ELVREGFITH GDDEDDEASA PGARRDDRLH RQ

[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: [233-314]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LDQDLNKTSE EDAQRLAKEL RERYGRSSSK QYRAAAQDGY VPQRFLLPSV DTATIWGVRC  60
   61 RPGKEKELIR KLLKKKFNLD RA

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	13.366532
Match:	PF03439
Description:	Supt5 repeat

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 #3

Region A:
Residues: [315-381]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGKKKLKILS IFQRDNYTGR IYIEAPKQSV IEKFCNGVPD IYISQKLLIP VQELPLLLKP  60
   61 NKSDDVA

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	15.09691
Match:	PF03439
Description:	Supt5 repeat

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 #4

Region A:
Residues: [382-440]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LEEGSYVRIK RGIYKGDLAM VDQISENNLE VMLKIVPRLD YGKFDEIDPT TQQRKSRRP

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	5.200659
Match:	PF00467
Description:	KOW motif

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: [441-531]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TFAHRAPPQL FNPTMALRLD QANLYKRDDR HFTYKNEDYI DGYLYKSFRI QHVETKNIQP  60
   61 TVEELARFGS KEGAVDLTSV SQSIKKAQAA K

[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 #6

Region A:
Residues: [532-570]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VTFQPGDRIE VLNGEQRGSK GIVTRTTKDI ATIKLNGFT

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	2.744727
Match:	PF00467
Description:	KOW motif

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 #7

Region A:
Residues: [571-617]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TPLEFPISTL RKIFEPGDHV TVINGEHQGD AGLVLMVEQG QVTFMST

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	4.0
Match:	PF00467
Description:	KOW motif

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 #8

Region A:
Residues: [618-794]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QTSREVTITA NNLSKSIDTT ATSSEYALHD IVELSAKNVA CIIQAGHDIF KVIDETGKVS  60
   61 TITKGSILSK INTARARVSS VDANGNEIKI GDTIVEKVGS RREGQVLYIQ TQQIFVVSKK 120
  121 IVENAGVFVV NPSNVEAVAS KDNMLSNKMD LSKMNPEIIS KMGPPSSKTF QQPIQSR

[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 #9

Region A:
Residues: [795-842]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GGREVALGKT VRIRSAGYKG QLGIVKDVNG DKATVELHSK NKHITIDK

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	5.0
Match:	PF00467
Description:	KOW motif

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 #10

Region A:
Residues: [843-908]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HKLTYYNREG GEGITYDELV NRRGRVPQAR MGPSYVSAPR NMATGGIAAG AAATSSGLSG  60
   61 GMTPGW

[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 #11

Region A:
Residues: [909-1063]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SSFDGGKTPA VNAHGGSGGG GVSSWGGAST WGGQGNGGAS AWGGAGGGAS AWGGQGTGAT  60
   61 STWGGASAWG NKSSWGGAST WASGGESNGA MSTWGGTGDR SAYGGASTWG GNNNNKSTRD 120
  121 GGASAWGNQD DGNRSAWNNQ GNKSNYGGNS TWGGH

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	3.69897
Match:	1deqA_
Description:	Fibrinogen
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