3KH2E

Crystal structure of the p1 bacteriophage doc toxin (f68s) in complex with the phd antitoxin (l17m/v39a). northeast structural genomics targets er385-er386
Total Genus 19
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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
19
sequence length
72
structure length
72
Chain Sequence
QSINFRTARGNLSEVMNNVEAGEEVEITRRGREPAVIASKATFEAYKKAALDAEFASLFDTLDSTNKELVNR
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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 Phd-Doc, HigA, and YeeU Establish Multiple Evolutionary Links between Microbial Growth-Regulating Toxin-Antitoxin Systems.
pubmed doi rcsb
molecule tags Toxin
source organism Bacteriophage p1
molecule keywords Death on curing protein
total genus 19
structure length 72
sequence length 72
chains with identical sequence F, G, H
ec nomenclature
pdb deposition date 2009-10-29

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
E PF02604 PhdYeFM_antitox Antitoxin Phd_YefM, type II toxin-antitoxin system
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1620.10 Alpha Beta 3-Layer(aba) Sandwich YefM-like fold YefM-like domain 3kh2E01
3OEIE 4ZM2A 3K33B 3G5OA 3K6QA 4ZLXA 4ZM0A 3OEIA 2ODKA 3HS2A 3KH2E 3D55A 3CTOA 2A6QA 3HRYA
chains in the Genus database with same CATH superfamily
4HLHC 4ZM2A 4HKKB 4L2FC 4UI4C 4L0VC 4ZLXA 4UI5C 4HL5C 4L10C 2ODKA 5ADRB 3CTOA 5C5PC 4KZLC 4KZUC 5C5QC 4L31C 4L33C 4HKIC 4L0SC 4L09C 3G5OA 4UI7C 3KH2E 5FPFC 3D55A 4L34C 4UVPB 2A6QA 4UI8C 3OEIE 5C5RC 4HKNC 3K6QA 4L32C 4HLGC 4ZM0A 5ADTB 4HLKC 3HS2A 4HMHC 4L0BC 4UI3C 5ADQB 2ZIXB 4L2KC 3HJ6A 3K33B 4HLFC 4L0TC 4HLMC 4L2GC 5ADSB 3OEIA 4KZQC 4L0IC 4UI6C 3HRYA
chains in the Genus database with same CATH topology
3OEIE 4ZM2A 3K33B 3G5OA 3K6QA 4ZLXA 4ZM0A 3OEIA 2ODKA 3HS2A 3KH2E 3D55A 3CTOA 2A6QA 3HRYA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3OEI E;  4ZM2 A;  3K33 B;  3G5O A;  3K6Q A;  4ZLX A;  4ZM0 A;  3OEI A;  2ODK A;  3HS2 A;  3KH2 E;  3D55 A;  3CTO A;  2A6Q A;  3HRY A; 
#chains in the Genus database with same CATH topology
 4HLH C;  4ZM2 A;  4HKK B;  4L2F C;  4UI4 C;  4L0V C;  4ZLX A;  4UI5 C;  4HL5 C;  4L10 C;  2ODK A;  5ADR B;  3CTO A;  5C5P C;  4KZL C;  4KZU C;  5C5Q C;  4L31 C;  4L33 C;  4HKI C;  4L0S C;  4L09 C;  3G5O A;  4UI7 C;  3KH2 E;  5FPF C;  3D55 A;  4L34 C;  4UVP B;  2A6Q A;  4UI8 C;  3OEI E;  5C5R C;  4HKN C;  3K6Q A;  4L32 C;  4HLG C;  4ZM0 A;  5ADT B;  4HLK C;  3HS2 A;  4HMH C;  4L0B C;  4UI3 C;  5ADQ B;  2ZIX B;  4L2K C;  3HJ6 A;  3K33 B;  4HLF C;  4L0T C;  4HLM C;  4L2G C;  5ADS B;  3OEI A;  4KZQ C;  4L0I C;  4UI6 C;  3HRY A; 
#chains in the Genus database with same CATH homology
 3OEI E;  4ZM2 A;  3K33 B;  3G5O A;  3K6Q A;  4ZLX A;  4ZM0 A;  3OEI A;  2ODK A;  3HS2 A;  3KH2 E;  3D55 A;  3CTO A;  2A6Q A;  3HRY 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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#similar chains in the pdb database (?% sequence similarity)
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