Entry: Guanylate_cyc (PF00211)

Display a clan
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

Download: AA alignments DNA alignments

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	474.21	474.2143	474.2143	474.2143	474.2143
κ	1.10	1.059694	1.05971	1.143341	1.144135
ω-ratio	ω=0.01188	p₀=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 = 0.27012	ω = 0.01757
Coeff. of variation of ω-ratio	CV_ω = 1.88844	CV_ω = 0.67714

Annotations

Interactions

This domain has 2 known interactions:

PF00211; PF00503;

Structures

This 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

eye (1)

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