2R0RA

Crystal structure of human saposin d variant sapd k9e
Total Genus 23
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
23
sequence length
77
structure length
77
Chain Sequence
GFCEVCEKLVGYLDRNLEKNSTKQEILAALEKGCSFLPDPYQKQCDQFVAEYEPVLIEILVEVMDPSFVCLKIGACP
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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publication title Crystal structures of human saposins C and d: implications for lipid recognition and membrane interactions.
pubmed doi rcsb
molecule tags Lipid binding protein
source organism Homo sapiens
molecule keywords Proactivator polypeptide
total genus 23
structure length 77
sequence length 77
chains with identical sequence B
ec nomenclature
pdb deposition date 2007-08-21

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF03489 SapB_2 Saposin-like type B, region 2
A PF05184 SapB_1 Saposin-like type B, region 1
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.225.10 Mainly Alpha Orthogonal Bundle NK-Lysin Saposin-like 2r0rA00
3RFIA 1QDMA 2JS9A 2GTGA 4DDJA 1OF9A 3BQQA 2DOBA 2JSAA 1L9LA 2W51A 3S64A 2R0RA 2LPNA 2RQYA 1M12A 1NKLA 2R1QA 3S63A 1SN6A 2QYPA 4BITA 1N69A 2Z9AA 2KVDA 3BQPA 2W50A 4V2OA 4UEXA 2RB3A
chains in the Genus database with same CATH superfamily
3RFIA 1QDMA 2JQ3A 2JS9A 2GTGA 3CJLA 4DDJA 1OF9A 3BQQA 2DOBA 2JSAA 1L9LA 2W51A 3S64A 2R0RA 3EUKE 2LPNA 2RQYA 1M12A 1NKLA 2R1QA 3S63A 1SN6A 2QYPA 4BITA 1N69A 2Z9AA 2KVDA 3BQPA 3EUJB 2W50A 4V2OA 4UEXA 2RB3A
chains in the Genus database with same CATH topology
3RFIA 1QDMA 2JS9A 2GTGA 4DDJA 1OF9A 3BQQA 2DOBA 2JSAA 1L9LA 2W51A 3S64A 2R0RA 2LPNA 2RQYA 1M12A 1NKLA 2R1QA 3S63A 1SN6A 2QYPA 4BITA 1N69A 2Z9AA 2KVDA 3BQPA 2W50A 4V2OA 4UEXA 2RB3A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3RFI A;  1QDM A;  2JS9 A;  2GTG A;  4DDJ A;  1OF9 A;  3BQQ A;  2DOB A;  2JSA A;  1L9L A;  2W51 A;  3S64 A;  2R0R A;  2LPN A;  2RQY A;  1M12 A;  1NKL A;  2R1Q A;  3S63 A;  1SN6 A;  2QYP A;  4BIT A;  1N69 A;  2Z9A A;  2KVD A;  3BQP A;  2W50 A;  4V2O A;  4UEX A;  2RB3 A; 
#chains in the Genus database with same CATH topology
 3RFI A;  1QDM A;  2JQ3 A;  2JS9 A;  2GTG A;  3CJL A;  4DDJ A;  1OF9 A;  3BQQ A;  2DOB A;  2JSA A;  1L9L A;  2W51 A;  3S64 A;  2R0R A;  3EUK E;  2LPN A;  2RQY A;  1M12 A;  1NKL A;  2R1Q A;  3S63 A;  1SN6 A;  2QYP A;  4BIT A;  1N69 A;  2Z9A A;  2KVD A;  3BQP A;  3EUJ B;  2W50 A;  4V2O A;  4UEX A;  2RB3 A; 
#chains in the Genus database with same CATH homology
 3RFI A;  1QDM A;  2JS9 A;  2GTG A;  4DDJ A;  1OF9 A;  3BQQ A;  2DOB A;  2JSA A;  1L9L A;  2W51 A;  3S64 A;  2R0R A;  2LPN A;  2RQY A;  1M12 A;  1NKL A;  2R1Q A;  3S63 A;  1SN6 A;  2QYP A;  4BIT A;  1N69 A;  2Z9A A;  2KVD A;  3BQP A;  2W50 A;  4V2O A;  4UEX A;  2RB3 A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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