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View Structure Prediction Details

Protein: RGD2
Organism: Saccharomyces cerevisiae
Length: 714 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 RGD2.

Description E-value Query
Range
Subject
Range
RGD2_YEAST - Rho-GTPase-activating protein RGD2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RGD2 ...
RGD2 - GTPase-activating protein (RhoGAP) for Cdc42p and Rho5p
0.0 [1..714] [1..714]
gi|25535897, gi|... - gi|3413874|dbj|BAA32301.1| KIAA0456 protein [Homo sapiens], pir||C59437 KIAA0456 protein [imported] ...
0.0 [13..710] [52..709]
RGA8_SCHPO - Rho-GTPase-activating protein 8 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rga8 PE=1 ...
rga8 - GTPase activating protein Rga8
0.0 [1..712] [2..658]
gi|20137012, gi|... - gi|20137012|ref|NP_619536.1| Rho GTPase activating protein 4 [Mus musculus], gi|18034447|gb|AAL57498...
0.0 [13..707] [28..709]
RGA7_SCHPO - Probable Rho-GTPase-activating protein 7 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=r...
rga7 - GTPase activating protein Rga7
3.0E-97 [16..704] [44..692]

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Predicted Domain #1
Region A:
Residues: [1-225]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLSFCDYFWS EDLVSGLDVL FDRLYHGCEQ CDLFIQLFAS RMQFEVSHGR QLFGIEAGMD  60
   61 NLKAVQEDED EGVTVSRALR GILQEMSQEG THHLTIASNI ESLVLQPFSK WCIEHRERIQ 120
  121 YSEKTLLTNV NNFRKSKKYV GKLEKEYFNK CRQLEEFKRT HFNEDELANA MKSLKIQNKY 180
  181 EEDVAREKDH RFFNRIAGID FDYKTMKETL QLLLTKLPKT DYKLP

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 9.07
Match: 1av1A
Description: Apolipoprotein A-I
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
cytoskeletal protein binding 3.124619761789 bayes_pls_golite062009
binding 2.22529267810903 bayes_pls_golite062009
protein binding 1.87308005875135 bayes_pls_golite062009
identical protein binding 0.909409198394921 bayes_pls_golite062009
enzyme binding 0.58709209959999 bayes_pls_golite062009
GTPase binding 0.50066793947946 bayes_pls_golite062009
GTPase regulator activity 0.459881864914566 bayes_pls_golite062009
nucleoside-triphosphatase regulator activity 0.456472132383968 bayes_pls_golite062009
enzyme regulator activity 0.180886944097381 bayes_pls_golite062009
small GTPase binding 0.0531578648468707 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [226-299]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LISYSLSNTN NGGEITKFLL DHMSLKDIDQ AETFGQDLLN LGFLKYCNGV GNTFVNSKKF  60
   61 QYQWKNTAYM FANV

[Run NCBI BLAST on this sequence.]

Detection Method: Pfam
Confidence: 12.180456
Match: PF00610
Description: Domain found in Dishevelled, Egl-10, and Pleckstrin

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: [300-366]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PMPGSEEPTT GESLISRFNN WDGSSAKEII QSKIGNDQGA AKIQAPHISD NERTLFRMMD  60
   61 ALAASDK

[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
GTPase regulator activity 5.23789256375467 bayes_pls_golite062009
nucleoside-triphosphatase regulator activity 5.21562004568462 bayes_pls_golite062009
small GTPase regulator activity 4.91645234075732 bayes_pls_golite062009
GTPase activator activity 4.81440293338491 bayes_pls_golite062009
Ras GTPase activator activity 4.76400460221691 bayes_pls_golite062009
Rho GTPase activator activity 4.58620967349979 bayes_pls_golite062009
enzyme regulator activity 4.5322075775333 bayes_pls_golite062009
Rac GTPase activator activity 4.48279904625182 bayes_pls_golite062009
enzyme activator activity 4.29367232260052 bayes_pls_golite062009
cytoskeletal protein binding 3.68681762274025 bayes_pls_golite062009
actin binding 3.68337819140185 bayes_pls_golite062009
actin filament binding 2.37781909937968 bayes_pls_golite062009
microfilament motor activity 2.15518436158221 bayes_pls_golite062009
binding 1.62780792681766 bayes_pls_golite062009
protein binding 1.21496582666968 bayes_pls_golite062009
Rho guanyl-nucleotide exchange factor activity 0.967362611034944 bayes_pls_golite062009
enzyme binding 0.56024350956935 bayes_pls_golite062009
GTPase binding 0.54882559587114 bayes_pls_golite062009
small GTPase binding 0.36738560339155 bayes_pls_golite062009

Predicted Domain #4
Region A:
Residues: [367-569]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KYYQECFKMD ALRCSVEELL IDHLSFMEKC ESDRLNAIKK ATLDFCSTLG NKISSLRLCI  60
   61 DKMLTLENDI DPTADLLQLL VKYKTGSFKP QAIVYNNYYN PGSFQNFGVD LETRCRLDKK 120
  121 VVPLIISSIF SYMDKIYPDL PNDKVRTSIW TDSVKLSLTH QLRNLLNKQQ FHNEGEIFDI 180
  181 LSTSKLEPST IASVVKIYLL ELP

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 38.0
Match: 1rgp__
Description: p50 RhoGAP domain
Matching Structure (courtesy of the PDB):

Predicted Domain #5
Region A:
Residues: [570-714]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DPLIPNDVSD ILRVLYLDYP PLVETALQNS TSSPENQQDD DNEEGFDTKR IRGLYTTLSS  60
   61 LSKPHIATLD AITTHFYRLI KILKMGENGN EVADEFTVSI SQEFANCIIQ SKITDDNEIG 120
  121 FKIFYDLLTH KKQIFHELKR QNSKN

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 38.0
Match: 1rgp__
Description: p50 RhoGAP domain
Matching Structure (courtesy of the PDB):

YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle