4BPXA

Crystal structure of human primase in complex with the primase- binding motif of dna polymerase alpha
Total Genus 121
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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
121
sequence length
406
structure length
381
Chain Sequence
TFDPTELPELLKLYYRRLFPYSQYYRWLNYGGVIKNYFQHREFSFTLKDDIYIRYQSFNNQSDLEKEMQAANPYKIDIGAVYSHRPNQHNTVKLGAFQAQEKELVFDIDMTDYDDVRRCCSSADICPKCWTLMTMAIRIIDRALKEDFGFKHRLWVYSGRRGVHCWVCDESVRKLSSAVRSGIVEYLSLVKGGQDVKKKVHLSEKIHPFIRKSINIIKKYFEEYALVNQDILENKESWDKILALVPETIHDELQQSFQKSHNSLQRWEHLKKVASRYQNNPWLEWEIMLQYCFPRLDINVSKGINHLLKSPFSVHPKTGRISVPIDLQKVDQFDPFTVPTISFICRELDAIRTRDYKKTSLAPYVKVFEHFLENLDKSRKG
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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 Structures of Human Primase Reveal Design of Nucleotide Elongation Site and Mode of Pol Alpha Tethering
pubmed doi rcsb
molecule tags Transferase
source organism Homo sapiens
molecule keywords DNA PRIMASE SMALL SUBUNIT
total genus 121
structure length 381
sequence length 406
chains with identical sequence C
ec nomenclature ec 2.7.7.-:
pdb deposition date 2013-05-28

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01896 DNA_primase_S DNA primase small subunit
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.920.30 Alpha Beta Alpha-Beta Complex DNA primase, PRIM domain DNA primase, PRIM domain 4bpxA00
4RR2A 4BPWA 4BPXA 4LIKA 4MHQA 1ZT2A 4LILA 2FAOA 5EXRA 4BPUA 4MM2A 2FARA 2FAQA 4LIMA
chains in the Genus database with same CATH superfamily
4RR2A 4BPWA 4BPXA 4LIKA 4MHQA 1ZT2A 1V34A 2FAOA 4LILA 5EXRA 4BPUA 4MM2A 2ATZA 2FARA 1V33A 2FAQA 4LIMA 1G71A
chains in the Genus database with same CATH topology
4RR2A 4BPWA 4BPXA 4LIKA 4MHQA 1ZT2A 1V34A 2FAOA 4LILA 5EXRA 4BPUA 4MM2A 2FARA 1V33A 2FAQA 4LIMA 1G71A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4RR2 A;  4BPW A;  4BPX A;  4LIK A;  4MHQ A;  1ZT2 A;  4LIL A;  2FAO A;  5EXR A;  4BPU A;  4MM2 A;  2FAR A;  2FAQ A;  4LIM A; 
#chains in the Genus database with same CATH topology
 4RR2 A;  4BPW A;  4BPX A;  4LIK A;  4MHQ A;  1ZT2 A;  1V34 A;  2FAO A;  4LIL A;  5EXR A;  4BPU A;  4MM2 A;  2ATZ A;  2FAR A;  1V33 A;  2FAQ A;  4LIM A;  1G71 A; 
#chains in the Genus database with same CATH homology
 4RR2 A;  4BPW A;  4BPX A;  4LIK A;  4MHQ A;  1ZT2 A;  1V34 A;  2FAO A;  4LIL A;  5EXR A;  4BPU A;  4MM2 A;  2FAR A;  1V33 A;  2FAQ A;  4LIM A;  1G71 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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