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30  structures 1045  species 0  interactions 3645  sequences 55  architectures

Family: Str_synth (PF03088)

Summary: Strictosidine synthase

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Strictosidine synthase Provide feedback

Strictosidine synthase (E.C. 4.3.3.2) is a key enzyme in alkaloid biosynthesis. It catalyses the condensation of tryptamine with secologanin to form strictosidine.

Literature references

  1. Bracher D, Kutchan TM; , Arch Biochem Biophys 1992;294:717-723.: Strictosidine synthase from Rauvolfia serpentina: analysis of a gene involved in indole alkaloid biosynthesis. PUBMED:1567228 EPMC:1567228


Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR018119

This entry represents a conserved region found in strictosidine synthase ( EC ), a key enzyme in alkaloid biosynthesis. It catalyses the Pictet-Spengler stereospecific condensation of tryptamine with secologanin to form strictosidine [ PUBMED:18081287 ]. The structure of the native enzyme from the Indian medicinal plant Rauvolfia serpentina (Serpentwood) (Devilpepper) represents the first example of a six-bladed four-stranded beta-propeller fold from the plant kingdom [ PUBMED:18280746 ].

Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

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Pfam Clan

This family is a member of clan Beta_propeller (CL0186), which has the following description:

This large clan contains proteins that contain beta propellers. These are composed of between 6 and 8 repeats. The individual repeats are composed of a four stranded sheet. The clan includes families such as WD40 Pfam:PF00400 where the individual repeats are modeled. The clan also includes families where the entire propeller is modeled such as Pfam:PF02239 usually because the individual repeats are not discernible. These proteins carry out a very wide diversity of functions including catalysis.

The clan contains the following 88 members:

ANAPC4_WD40 APMAP_N Arylesterase Arylsulfotran_2 Arylsulfotrans B_lectin BBS2_Mid Beta_propel Coatomer_WDAD CPSF_A CyRPA Cytochrom_D1 Dpp_8_9_N DPPIV_N DPPIV_rep DUF1513 DUF1668 DUF2415 DUF3748 DUF4221 DUF4933 DUF4934 DUF5046 DUF5050 DUF5122 DUF5128 DUF5711 DUF839 eIF2A FG-GAP FG-GAP_2 FG-GAP_3 Frtz Ge1_WD40 Glu_cyclase_2 Gmad1 GSDH Hyd_WA IKI3 Itfg2 Kelch_1 Kelch_2 Kelch_3 Kelch_4 Kelch_5 Kelch_6 Lactonase Ldl_recept_b LGFP Lgl_C LVIVD Me-amine-dh_H MgpC MRJP Nbas_N Neisseria_PilC NHL nos_propeller nos_propeller_2 Nucleoporin_N Nup160 PALB2_WD40 PD40 Pectate_lyase22 Peptidase_S9_N PHTB1_N Phytase-like PQQ PQQ_2 PQQ_3 RAG2 RCC1 RCC1_2 Reg_prop SBBP SBP56 SdiA-regulated SGL Str_synth TcdB_toxin_midN Tectonin TolB_like VID27 WD40 WD40_2 WD40_3 WD40_4 WD40_like

Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB sequence database. More...

View options

We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(6)
Full
(3645)
Representative proteomes UniProt
(8331)
RP15
(489)
RP35
(1770)
RP55
(3173)
RP75
(4635)
Jalview View  View  View  View  View  View  View 
HTML View  View           
PP/heatmap 1 View           

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(6)
Full
(3645)
Representative proteomes UniProt
(8331)
RP15
(489)
RP35
(1770)
RP55
(3173)
RP75
(4635)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

Download options

We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(6)
Full
(3645)
Representative proteomes UniProt
(8331)
RP15
(489)
RP35
(1770)
RP55
(3173)
RP75
(4635)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download  

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: Pfam-B_1533 (release 6.5)
Previous IDs: none
Type: Repeat
Sequence Ontology: SO:0001068
Author: Griffiths-Jones SR
Number in seed: 6
Number in full: 3645
Average length of the domain: 85.80 aa
Average identity of full alignment: 36 %
Average coverage of the sequence by the domain: 23.26 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 20.8 20.8
Trusted cut-off 20.8 20.8
Noise cut-off 20.7 20.7
Model length: 89
Family (HMM) version: 18
Download: download the raw HMM for this family

Species distribution

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Selections

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This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

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Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the Str_synth domain has been found. There are 30 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.

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AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A0P0V705 View 3D Structure Click here
A0A0P0XLT0 View 3D Structure Click here
A0A0R0IEQ8 View 3D Structure Click here
A0A0R0JS40 View 3D Structure Click here
A0A0R0K8U5 View 3D Structure Click here
A0A1D6G8B7 View 3D Structure Click here
A0A1D6G8B8 View 3D Structure Click here
A0A1D6I3E1 View 3D Structure Click here
A0A1D6I3E3 View 3D Structure Click here
A0A1D6K2N2 View 3D Structure Click here
A0A1D6K2N4 View 3D Structure Click here
A0A1D6K2N8 View 3D Structure Click here
A0A1D6K2N9 View 3D Structure Click here
A0A1D6L4P1 View 3D Structure Click here
A0A1D6QHE7 View 3D Structure Click here
B3DIS2 View 3D Structure Click here
B4FZD8 View 3D Structure Click here
F4IJZ6 View 3D Structure Click here
I1JCB3 View 3D Structure Click here
I1JN75 View 3D Structure Click here
I1JN76 View 3D Structure Click here
I1K173 View 3D Structure Click here
I1KFH2 View 3D Structure Click here
I1KX07 View 3D Structure Click here
I1L1R1 View 3D Structure Click here
I1LU20 View 3D Structure Click here
I1M570 View 3D Structure Click here
I1MD54 View 3D Structure Click here
I1MMB1 View 3D Structure Click here
I1MMY1 View 3D Structure Click here
I1MTB4 View 3D Structure Click here
I1N8U7 View 3D Structure Click here
K7K6E4 View 3D Structure Click here
K7M2Y1 View 3D Structure Click here
K7V300 View 3D Structure Click here
K7V3G6 View 3D Structure Click here
K7V7D8 View 3D Structure Click here
K7V7E8 View 3D Structure Click here
K7VB43 View 3D Structure Click here
K7VN05 View 3D Structure Click here
O62040 View 3D Structure Click here
O62265 View 3D Structure Click here
P92976 View 3D Structure Click here
P94111 View 3D Structure Click here
Q0DNI8 View 3D Structure Click here
Q0IW03 View 3D Structure Click here
Q22437 View 3D Structure Click here
Q2QXZ1 View 3D Structure Click here
Q4V3D9 View 3D Structure Click here
Q54RB1 View 3D Structure Click here
Q69U01 View 3D Structure Click here
Q6Z4U1 View 3D Structure Click here
Q6Z5B5 View 3D Structure Click here
Q6Z8S2 View 3D Structure Click here
Q7TP48 View 3D Structure Click here
Q803F5 View 3D Structure Click here
Q84Q89 View 3D Structure Click here
Q8H3A4 View 3D Structure Click here
Q8VWF6 View 3D Structure Click here
Q94KI9 View 3D Structure Click here
Q9C586 View 3D Structure Click here
Q9C9C2 View 3D Structure Click here
Q9CAZ7 View 3D Structure Click here
Q9D7N9 View 3D Structure Click here
Q9HDC9 View 3D Structure Click here
Q9M1B4 View 3D Structure Click here
Q9M1J6 View 3D Structure Click here
Q9M1J7 View 3D Structure Click here
Q9SD04 View 3D Structure Click here
Q9SD05 View 3D Structure Click here
Q9SD07 View 3D Structure Click here
Q9SLG8 View 3D Structure Click here
Q9VAQ9 View 3D Structure Click here
Q9VB46 View 3D Structure Click here