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ProFunc results for 5p21

3D structure
Jmol   RasMol
Header details

Structure:
C-h-ras p21 protein.

Source:
Homo sapiens. Human. Organism_taxid: 9606

Date:
30 Apr 90

Author(s):
E.F.Pai,A.Wittinghofer,W.Kabsch

Resolution:
1.000Å      

Waters:
211

Summary of predicted function

+ Protein name terms
gtpase (57.74) human (54.83) gdp (45.80) h-ras (33.79) domain (28.65) bound (24.08) ras (22.58) gtp (22.36)

+ Gene Ontology (GO) terms
Cellular component: membrane (0.80) cell (0.80) cell part (0.80) intracellular (0.80)
Biological process: small GTPase mediated signal transduction (0.80) biological regulation (0.80) regulation of biological process (0.80) regulation of cellular process (0.80)
Biochemical function: GTP binding (0.80) binding (0.80) nucleotide binding (0.80) purine nucleotide binding (0.80)
The protein names and GO terms above are the most common terms found in the hits obtained from the analyses below. Each term's score (based on the number of times it occurs independently) is given in brackets. Click on the plus icons for a complete breakdown of which programs, and further, which hits the terms came from.

ProFunc results

Sequence motifs

InterPro scan for sequence motifs. Chain A

12 motifs matched in scan against PROSITE, PRINTS, PFam-A, TIGRFAM, PROFILES and PRODOM motifs

  Type Motif Name
1. HMMPfam PF00071 Ras
2. HMMTigr TIGR00231 small_GTP: small GTP-binding protein domain
3. HMMPanther PTHR24070:SF2 SUBFAMILY NOT NAMED
4. HMMPanther PTHR24070 FAMILY NOT NAMED
5. HMMSmart SM00173 Ras subfamily of RAS small GTPases
... plus others

Matches to existing PDB structures

Sequence search vs existing PDB entries. Chain A

399 matching sequences found by FASTA search

  PDB code E-value %-tage id Overlap Name
1. 121p(A) 8.8e-67 100.000 166 Struktur und guanosintriphosphat-hydrolysemechanismus des c- terminal verkuerzten menschlichen krebsproteins p21-h-ras
2. 1bkd(R) 8.8e-67 100.000 166 Complex of human h-ras with human sos-1
3. 1crp(A) 8.8e-67 100.000 166 The solution structure and dynamics of ras p21. Gdp determined by heteronuclear three and four dimensional nmr spectroscopy
4. 1crq(A) 8.8e-67 100.000 166 The solution structure and dynamics of ras p21. Gdp determined by heteronuclear three and four dimensional nmr spectroscopy
5. 1crr(A) 8.8e-67 100.000 166 The solution structure and dynamics of ras p21. Gdp determined by heteronuclear three and four dimensional nmr spectroscopy
... plus others

Sequence search

BLAST search vs Uniprot. Chain A

50 matching sequences found by BLAST search

  Ref. no. E-value %-tage id Overlap Name
1. F8WG81_RAT 100.000 166 F8WG81 Protein Hras (Fragment) OS=Rattus norvegicus GN=Hras PE=4
2. H0UT66_CAVPO 99.398 166 H0UT66 Uncharacterized protein OS=Cavia porcellus GN=HRAS PE=4 SV=1
3. G7PNN4_MACFA 99.398 166 G7PNN4 Transforming protein p21 OS=Macaca fascicularis GN=EGM_05253
4. H2Q2V0_PANTR 99.398 166 H2Q2V0 Uncharacterized protein OS=Pan troglodytes
5. G3N1U2_BOVIN 98.795 166 G3N1U2 Uncharacterized protein (Fragment) OS=Bos taurus GN=HRAS
... plus others

Residue conservation analysis

Conservation mapped onto 3D structure.

 

Gene neighbours

Neighbouring genes on genome. Chain A

Found 2 homologues with genome location data

Matching folds detected by SSM

Matching folds. Chain A

2322 significant structural matches

  Q-score Rmsd No. SSE Z-score PDB Name
1. 0.992 0.27Å 11 16.0 121p Struktur und guanosintriphosphat-hydrolysemechanismus des c- terminal verkuerzten menschlichen krebsproteins p21-h-ras
2. 0.983 0.39Å 11 14.9 221p Three-dimensional structures of h-ras p21 mutants: molecular their inability to function as signal switch molecules
3. 0.976 0.48Å 11 16.0 1agp Three-dimensional structures and properties of a transformin nontransforming gly-12 mutant of p21-h-ras
4. 0.926 0.85Å 11 14.1 1zw6 Crystal structure of the gtp-bound form of rasq61g
5. 0.878 0.72Å 11 14.8 1ioz Crystal structure of thE C-ha-ras protein prepared by the cell-free synthesis
... plus others

Nest analysis

Nest analysis. Chain A

7 nests located in the structure

  Score No.
resid.
Ave.
access-
ibility
Cleft Ave.
conser-
vation
Residues
1. 4.000 3 0.00 1 1.000 Lys117(A), Cys118(A), Asp119(A)
2. 3.963 5 0.00 1 0.963 Gly13(A), Val14(A), Gly15(A), Lys16(A), Ser17(A)
3. 2.000 3 0.00 7 1.000 Tyr137(A), Gly138(A), Ile139(A)
4. 1.000 3 0.00 - 1.000 Gln25(A), Asn26(A), His27(A)
5. 1.000 3 0.00 - 1.000 Lys104(A), Asp105(A), Ser106(A)
... plus others

Cleft analysis

Surface clefts.

 

3D functional template searches

Enzyme active site templates.

No hits obtained from any of the 584 enzyme active site templates.

Ligand-binding templates.

20 significant hits out of 94569 ligand-binding templates.

  Score Template PDB Name
1. 980.000 AGNc0002 1gnp X-ray crystal structure analysis of the catalytic domain of the oncogene product p21h-ras complexed with caged gtp and mant dgppnhp
Het Group AGN
2. 920.000 GTPc0113 1nvx Structural evidence for feedback activation by rasgtp of the ras-specific nucleotide exchange factor sos
Het Group GTP
3. 900.000 GDPc0072 1crp The solution structure and dynamics of ras p21. Gdp determined by heteronuclear three and four dimensional nmr spectroscopy
Het Group GDP
4. 880.000 GNPc0571 621p Three-dimensional structures of h-ras p21 mutants: molecular their inability to function as signal switch molecules
Het Group GNP
5. 875.000 GDPc0742 2cld Crystal structure analysis of a fluorescent form of h-ras p21 in complex with gdp (2)
Het Group GDP
... plus others

DNA-binding templates.

No hits obtained from any of the 4194 DNA-binding templates.

Reverse template comparison vs structures in PDB.

20 significant hits out of 332 auto-generated templates.

  Score Template PDB Name
1. 1000.000 TMP00046 4q21 Molecular switch for signal transduction: structural differences between active and inactive forms of protooncogenic ras proteins
2. 1000.000 TMP00046 4dlr H-ras peg 400/ca(oac)2, ordered off
3. 1000.000 TMP00046 2ce2 Crystal structure analysis of a fluorescent form of h-ras p21 in complex with gdp
4. 995.000 TMP00046 2cld Crystal structure analysis of a fluorescent form of h-ras p21 in complex with gdp (2)
5. 991.250 TMP00046 3gft Human k-ras in complex with a gtp analogue
... plus others

Key

In the summaries above, the hits are coloured according to their likelihood of being correct as follows: certain matches, probable matches, possible matches, and long shots. If the reliability of a hit is unknown, it is shown in navy blue.

Generated on Thu 6 Dec 2012 spacer

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