PANDIT+

KeywordFamilyClanGene   

Entry: Guanylate_cyc (PF00211)

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Very fast search for clan entries. The
search can be done either by clan ID
(e.g. CL0192) or by clan name (e.g. GPCR_A).

Pfam summary

Description

Adenylate and Guanylate cyclase catalytic domain

 
Literature
 
Clan

CL0276 (Nucleot_cyclase)

The clan contains the following members: PF00990(GGDEF); PF05165(GGDN); PF00211(Guanylate_cyc);
 
InterPro entry IPR001054
 

Alignment

New Hampshire tree

The seed alignment for this family in the PANDIT database contains 21 aligned sequences:

  ADCY1_BOVIN/296-480   ADCY1_BOVIN/862-1059   ADCY2_HUMAN/878-1078   ADCY3_RAT/310-494   ADCY3_RAT/914-1121   ADCY8_HUMAN/973-1172   ADCY9_MOUSE/385-573   ANPRA_HUMAN/867-1053   CYAA_ANACY/311-502   CYAA_DICDI/1180-1356   CYAA_SCHPO/1323-1519   CYAA_STIAU/221-410   CYAA_STRCO/182-373   CYAA_TRYEQ/94-307   CYAG_DICDI/387-572   CYG1_BOVIN/412-605   CYG1_CAEEL/889-1077   CYG2_RAT/399-582   CYG3_BOVIN/473-660   CYGH_DROME/456-645   GUC2C_HUMAN/815-1002  

The full alignment for this family in the Pfam database contains 4141 aligned sequences

Species in the seed alignment

List of species covered in the seed alignment. The number in brackets denotes the number of sequences taken from each organism.

  Bos taurus (4);   Homo sapiens (4);   Rattus norvegicus (3);   Dictyostelium discoideum (2);   Caenorhabditis elegans (1);   Streptomyces coelicolor (1);   Schizosaccharomyces pombe (1);   Anabaena cylindrica (1);   Drosophila melanogaster (1);   Trypanosoma equiperdum (1);   Stigmatella aurantiaca (1);   Mus musculus (1);  

The full alignment covers 484 species.

Pre-computed estimates from Markov codon substitution models (explanation)

Following are maximum-likelihood estimates and log-likelihood scores from codon models M0, M1, M2, M7 and M8, implemented in PAML v.4.1

Model name  

Model M0

Model M1

Model M2

Model M7

Model M8

Log-likelihood score  

-10544.20-10453.615875-10453.615886-10298.789333-10298.794151

Tree Length  

474.21474.2143474.2143474.2143474.2143

κ  

1.101.0596941.059711.1433411.144135

ω-ratio  

ω=0.01188p0=0.845774 ~ ω0=0.013775
p1=0.154226 ~ ω1=1
p0=0.845779 ~ ω0=0.013775
p1=0.154221 ~ ω1=1
p2=0 ~ ω2=24.520781
ω~Β(1.504966,92.678754)p0=0.999999 ~ ω~Β(1.493358,91.35619)
p1=1e-06 ~ ω=35.992994

P-value for testing  
positive selection  

M1 vs M2: P-value=1
domain classification: conserved
M7 vs M8: P-value=1
domain classification: conserved

Maximum-likelihood estimates and log-likelihood scores from codon models Nonsynonymous and Dual implemented in HYPHY

Model name  

Model Nonsynonymous

Model Dual

Log-likelihood score  

-12729.2128-12574.96666

Mean ω-ratio  

ω = 0.27012ω = 0.01757

Coeff. of variation  
of ω-ratio  

CVω = 1.88844CVω = 0.67714
 

Annotations

InteractionsThis domain has 2 known interactions:
PF00211; PF00503;

StructuresThis domain has 76 structures:
Notation: PDB_ID (PDB chain, PDB residues)
  • 1u0h  (A, 382-566)
  • 3e8a  (A, 382-566)
  • 1cju  (A, 382-566)
  • 2gvz  (A, 382-566)
  • 1cs4  (A, 382-566)
  • 1cjt  (A, 382-566)
  • 1tl7  (A, 382-566)
  • 1azs  (A, 382-566)
  • 2gvd  (A, 382-566)
  • 3c16  (A, 382-566)
  • 3c15  (A, 382-566)
  • 1cul  (A, 382-566)
  • 1cjk  (A, 382-566)
  • 3c14  (A, 382-566)
  • 1cjv  (A, 382-566)
  • 2w01  (A, 437-621)
  • 2w01  (F, 437-621)
  • 2w01  (D, 437-621)
  • 2w01  (C, 437-621)
  • 2w01  (B, 437-621)
  • 2w01  (E, 437-621)
  • 2bw7  (C, 1005-1197)
  • 1wc1  (C, 1005-1197)
  • 1wc1  (A, 1005-1197)
  • 1wc6  (C, 1005-1197)
  • 1wc5  (C, 1005-1197)
  • 1wc3  (B, 1005-1197)
  • 1wc1  (B, 1005-1197)
  • 1wc5  (A, 1005-1197)
  • 1wc0  (A, 1005-1197)
More...

Gene Ontologies
Biological Process
 cyclic nucleotide biosynthetic process[GO:0009190]
 intracellular signaling cascade[GO:0007242]
Molecular Function
 phosphorus-oxygen lyase activity[GO:0016849]

KEGG Pathways - for genes coding for sequences from full alignment
Metabolism
Nucleotide Metabolism
Purine metabolism [KEGG]
Amino Acid Metabolism
Glutamate metabolism [KEGG]
Xenobiotics Biodegradation and Metabolism
Drug metabolism - other enzymes [KEGG]
Environmental Information Processing
Signal Transduction
Calcium signaling pathway [KEGG]
Cellular Processes
Cell Motility
Bacterial chemotaxis [KEGG]
Cell Communication
Gap junction [KEGG]
Endocrine System
GnRH signaling pathway [KEGG]
Progesterone-mediated oocyte maturation [KEGG]
Melanogenesis [KEGG]
Nervous System
Long-term potentiation [KEGG]
Long-term depression [KEGG]
Sensory System
Olfactory transduction [KEGG]
Taste transduction [KEGG]
Human Diseases
Infectious Diseases
Vibrio cholerae infection [KEGG]
 

Expression data (explanation)

 
Bgee expression data - for genes coding for sequences from seed alignment     Click here for overview of Bgee data

The numbers in brackets correspond to the number of genes that are associated with the selected family and are expressed in the corresponding tissue. Click on the tissue to see all the families that possibly have function in that tissue and click on the genes to see the corresponding genes.

Homo sapiens
Mus musculus
Danio rerio

HumanProteinpedia expression data - for human genes coding for sequences from full alignment     Click here for overview of Human Proteinpedia data

The numbers in brackets correspond to the number of human genes that are associated with the selected family and are expressed in the corresponding tissue. Click on the tissue to see all the families that possibly have function in that tissue and click on the genes to see the corresponding genes.

Healthy tissues
Disease tissues

Human disease association

 
Genetic Association Database - data for human genes coding for sequences from full alignment

The numbers in brackets correspond to the number of genes that are associated with the selected family and are associated with the corresponding disease. Click on the disease name to see all the families possibly associated with that disease and click on the genes to see the corresponding genes.

Associated diseases and disorders

Links to OMIM - for human genes coding for sequences from full alignment
 
600292 (1) 600385 (1) 600291 (1) 108960 (1) 601330 (1) 601244 (1) 103070 (1) 600293 (1) 103072 (1) 108961 (1) 300041 (1) 139396 (1) 603302 (1) 600294 (1) 103071 (1) 605205 (1) 600179 (1) 139397 (1)