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Proteins and macromolecular structures in use in SiMPLOD:

From this page you can gather additional details and download molecular coordinates:

 

Lysyl Hydroxylase 1 (human)

Gene and cDNA details and annotations
NCBI Entrez Gene id: 5351 - Refseq: NM_000302.2 - Sequence viewer
HGNC: 9081 - ENSEMBL: ENSG00000083444 - UCSC: uc001atm.4 - GenAtlas: 557
NCBI CCDS id: CCDS142 - NCBI Nuccore: NG_008159.1

Protein details and annotations
Uniprot: Q02809 - NCBI Protein: NP_000293.2 - KEGG: K00473
InterPro - Pfam - Protein Sequence

Clinical annotations
OMIM: 153454 - Orphanet: 117888 - LOVD: PLOD1 - DECIPHER: PLOD1

Available molecular coordinates for download:
- homology model of full-length, dimeric human LH1 (generated using the crystal structure of full-length human LH3 as template) - Model details
  this is a homology model: this model has been generated using an experimentally-determined template and represents a prediction of the actual LH1 structure.. At the moment, no experimental human LH1 structures are available



structural representation of Lysyl Hydroxylase 1 (human)
 

Lysyl Hydroxylase 2a (human)

Gene and cDNA details and annotations
NCBI Entrez Gene id: 5352 - Refseq: NM_000935.2 - Sequence viewer
HGNC: 9082 - ENSEMBL: ENSG00000152952 - UCSC: uc003evr.2 - GenAtlas: 6102
NCBI CCDS id: CCDS3131 - NCBI Nuccore: NG_009251.1

Protein details and annotations
Uniprot: O00469 - NCBI Protein: NP_000926.2 - KEGG: K13645
InterPro - Pfam - Protein Sequence

Clinical annotations
OMIM: 601865 - Orphanet: 117892 - LOVD: PLOD2 - DECIPHER: PLOD2

Available molecular coordinates for download:
- homology model of full-length, dimeric human LH2a (generated using the crystal structure of full-length human LH3 as template) - Model details
  this is a homology model: this model has been generated using an experimentally-determined template and represents a prediction of the actual LH2a structure.. At the moment, no experimental human LH2a structures are available



structural representation of Lysyl Hydroxylase 2a (human)
 

Lysyl Hydroxylase 2b (human)

Gene and cDNA details and annotations
NCBI Entrez Gene id: 5352 - Refseq: NM_182943.2 - Sequence viewer
HGNC: 9082 - ENSEMBL: ENSG00000152952 - UCSC: uc003evr.2 - GenAtlas: 6102
NCBI CCDS id: CCDS3132 - NCBI Nuccore: NG_009251.1

Protein details and annotations
Uniprot: O00469-2 - NCBI Protein: NP_891988.1 - KEGG: K13645
InterPro - Pfam - Protein Sequence

Clinical annotations
OMIM: 601865 - Orphanet: 117892 - LOVD: PLOD2 - DECIPHER: PLOD2

Available molecular coordinates for download:
- homology model of full-length, dimeric human LH2b (generated using the crystal structure of full-length human LH3 as template) - Model details
  this is a homology model: this model has been generated using an experimentally-determined template and represents a prediction of the actual LH2b structure.. At the moment, no experimental human LH2b structures are available



structural representation of Lysyl Hydroxylase 2b (human)
 

Lysyl Hydroxylase 3 (human)

Gene and cDNA details and annotations
NCBI Entrez Gene id: 8985 - Refseq: NM_001084.4 - Sequence viewer
HGNC: 9083 - ENSEMBL: ENSG00000106397 - UCSC: uc003uyd.4 - GenAtlas: 6873
NCBI CCDS id: CCDS5715 - NCBI Nuccore: NG_012148.1

Protein details and annotations
Uniprot: O60568 - NCBI Protein: NP_001075.1 - KEGG: K13646
InterPro - Pfam - Protein Sequence

Clinical annotations
OMIM: 603066 - Orphanet: 304172 - LOVD: PLOD3 - DECIPHER: PLOD3

Available molecular coordinates for download:
- homology model of full-length, dimeric human LH3 (generated using the crystal structure of full-length human LH3 as template) - Model details
  this is a homology model: this model has been generated using an experimentally-determined template and represents a prediction of the actual LH3 structure.. This homology model completes the available 3D structures of LH3, including flexible loops and more extended glycans compared to those experimentally visible in crystal structures.

- dimeric structure of LH3 in complex with Fe2+ and 2-OG (from PDB id 6FXK)
  this model is based on the experimentally-determined crystal structure 6FXK, deposited in the Protein data Bank and published in Scietti et al., 2018

- dimeric structure of LH3 in complex with Fe2+, 2-OG and Mn2+ (from PDB id 6FXM)
  this model is based on the experimentally-determined crystal structure 6FXM, deposited in the Protein data Bank and published in Scietti et al., 2018

- dimeric structure of LH3 in complex with Fe2+, 2-OG, Mn2+ and UDP-Galactose (from PDB id 6FXR)
  this model is based on the experimentally-determined crystal structure 6FXR, deposited in the Protein data Bank and published in Scietti et al., 2018

- dimeric structure of LH3 in complex with Fe2+, 2-OG, Mn2+ and UDP-Glucose (from PDB id 6FXT)
  this model is based on the experimentally-determined crystal structure 6FXT, deposited in the Protein data Bank and published in Scietti et al., 2018



structural representation of Lysyl Hydroxylase 3 (human)
 

Lysyl Hydroxylase L230 (mimivirus)

Gene and cDNA details and annotations
NCBI Entrez Gene id: 9924837 - Refseq: HQ336222.2 - Sequence viewer

Protein details and annotations
Uniprot: Q5UQC3 - NCBI Protein: YP_003986726.1 - KEGG: K21236
InterPro - Pfam - Protein Sequence

Available molecular coordinates for download:
- dimeric structure of of the C-terminal LH domain of mimivirus L230 in complex with Fe2+ (from PDB id 6AX7)
  this model is based on the experimentally-determined crystal structure 6AX7, deposited in the Protein data Bank and published in Guo et al., 2018



structural representation of Lysyl Hydroxylase L230 (mimivirus)

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