3W5WA

Mn2+-gmp complex of nanornase (nrn) from bacteroides fragilis
Total Genus 107
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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
107
sequence length
342
structure length
340
Chain Sequence
LTKVIAQAHIDHFTKWFERADKIVIVSHVSPDGDAIGSSLGLYHFLDSQDKIVNVIVPNAFPDFLKWMPGSKDILLYDRYQEFADKLIMEADVICCLDFNALKRIDEMSDIVAASPGRKIMIDHHLYPEDFCRITISHPEISSTSELVFRLICRMGYFSDISKEGAECIYTGMMTDTGGFTYNSNNREIYFIISELLSKGIDKDDIYRKVYNTYSESRLRLMGYVLSNMKVYKDYNSALISLTKEEQGKFDYIKGDSEGFVNIPLSIKNVCFSCFLREDTEMIKISLRSVGKFPCNRLAAEFFNGGGHLNASGGEFYGTMEEAVKVFEQALEKYKPLLKE
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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 structure of the ligand-binding form of nanoRNase from Bacteroides fragilis, a member of the DHH/DHHA1 phosphoesterase family of proteins
rcsb
source organism Bacteroides fragilis
molecule tags Hydrolase
molecule keywords Putative exopolyphosphatase-related protein
total genus 107
structure length 340
sequence length 342
ec nomenclature
pdb deposition date 2013-02-07

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01368 DHH DHH family
A PF02272 DHHA1 DHHA1 domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.10.310.30 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 3w5wA02
3.90.1640.10 Alpha Beta Alpha-Beta Complex inorganic pyrophosphatase (n-terminal core) inorganic pyrophosphatase (n-terminal core) 3w5wA01
2QB7A 1WPPA 2EB0A 2ZXOA 2ZXRA 2QB8A 2IW4A 1IR6A 2QB6A 3DEVA 1K23A 2HAWA 1K20A 1WPNA 1I74A 1WPMA 4LS9A 2ENXA 3W5WA 2ZXPA 4RPAA 4PY9A
chains in the Genus database with same CATH superfamily
2QB7A 3EKMA 1QY9A 4J9XA 4IJZA 3IGHX 1YM5A 3ICJA 2HAWA 1S7JA 4GL6A 5GL4A 4JBDA 5IWEA 3EDNA 1SDJA 1QYAA 1U0KA 3G98A 4K8LA 3WQZA 1XUBA 3W5WA 2GKEA 2ZXPA 4JUUA 1W62A 1WPPA 3FVEA 2ZXOA 1BWZA 5GL2A 1U1XA 4IK0A 1WPNA 2YMAA 2PW0A 1WPMA 5ANPA 4Q60A 3PVHA 4JD7A 3EJXA 3PW9A 4LB0A 2KW7A 4PY9A 1U1WA 2EB0A 2ZXRA 2H9FA 2QB8A 4K7XA 2IW4A 5H2YA 2QB6A 3DEVA 1TM0A 5H2GA 4FC5A 4K7GB 2ZVFA 2MPBA 4DWZA 2KPTA 2OTNA 4OA3A 4Q2HA 4LS9A 4RPAA 1W61A 4J9WA 5M47A 4LG3A 2Q9HA 4JCIA 1T6KA 2GKJA 5GL3A 1IR6A 2LT2A 2Q9JA 1GQZA 1K23A 4DUNA 2PVZA 1K20A 3PTJA 2AZPA 1I74A 5GKXA 3G7KA 5HA4A 1XUAA 2ENXA 1U1VA
chains in the Genus database with same CATH topology
2QB7A 3EKMA 1QY9A 4J9XA 4IJZA 3IGHX 1YM5A 3ICJA 2HAWA 1S7JA 4GL6A 5GL4A 4JBDA 5IWEA 3EDNA 1SDJA 1QYAA 1U0KA 3G98A 4K8LA 3WQZA 1XUBA 3W5WA 2GKEA 2ZXPA 4JUUA 1W62A 1WPPA 3FVEA 2ZXOA 1BWZA 5GL2A 1U1XA 4IK0A 1WPNA 2YMAA 2PW0A 1WPMA 5ANPA 4Q60A 3PVHA 4JD7A 3EJXA 3PW9A 4LB0A 2KW7A 4PY9A 1U1WA 2EB0A 2ZXRA 2H9FA 2QB8A 4K7XA 2IW4A 5H2YA 2QB6A 3DEVA 1TM0A 5H2GA 4FC5A 4K7GB 2ZVFA 2MPBA 4DWZA 2KPTA 2OTNA 4OA3A 4Q2HA 4LS9A 4RPAA 1W61A 4J9WA 5M47A 4LG3A 2Q9HA 4JCIA 1T6KA 2GKJA 5GL3A 1IR6A 2LT2A 2Q9JA 1GQZA 1K23A 4DUNA 2PVZA 1K20A 3PTJA 2AZPA 1I74A 5GKXA 3G7KA 5HA4A 1XUAA 2ENXA 1U1VA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2QB7 A;  1WPP A;  2EB0 A;  2ZXO A;  2ZXR A;  2QB8 A;  2IW4 A;  1IR6 A;  2QB6 A;  3DEV A;  1K23 A;  2HAW A;  1K20 A;  1WPN A;  1I74 A;  1WPM A;  4LS9 A;  2ENX A;  3W5W A;  2ZXP A;  4RPA A;  4PY9 A; 
#chains in the Genus database with same CATH topology
 2QB7 A;  3EKM A;  1QY9 A;  4J9X A;  4IJZ A;  3IGH X;  1YM5 A;  3ICJ A;  2HAW A;  1S7J A;  4GL6 A;  5GL4 A;  4JBD A;  5IWE A;  3EDN A;  1SDJ A;  1QYA A;  1U0K A;  3G98 A;  4K8L A;  3WQZ A;  1XUB A;  3W5W A;  2GKE A;  2ZXP A;  4JUU A;  1W62 A;  1WPP A;  3FVE A;  2ZXO A;  1BWZ A;  5GL2 A;  1U1X A;  4IK0 A;  1WPN A;  2YMA A;  2PW0 A;  1WPM A;  5ANP A;  4Q60 A;  3PVH A;  4JD7 A;  3EJX A;  3PW9 A;  4LB0 A;  2KW7 A;  4PY9 A;  1U1W A;  2EB0 A;  2ZXR A;  2H9F A;  2QB8 A;  4K7X A;  2IW4 A;  5H2Y A;  2QB6 A;  3DEV A;  1TM0 A;  5H2G A;  4FC5 A;  4K7G B;  2ZVF A;  2MPB A;  4DWZ A;  2KPT A;  2OTN A;  4OA3 A;  4Q2H A;  4LS9 A;  4RPA A;  1W61 A;  4J9W A;  5M47 A;  4LG3 A;  2Q9H A;  4JCI A;  1T6K A;  2GKJ A;  5GL3 A;  1IR6 A;  2LT2 A;  2Q9J A;  1GQZ A;  1K23 A;  4DUN A;  2PVZ A;  1K20 A;  3PTJ A;  2AZP A;  1I74 A;  5GKX A;  3G7K A;  5HA4 A;  1XUA A;  2ENX A;  1U1V A; 
#chains in the Genus database with same CATH homology
 2QB7 A;  3EKM A;  1QY9 A;  4J9X A;  4IJZ A;  3IGH X;  1YM5 A;  3ICJ A;  2HAW A;  1S7J A;  4GL6 A;  5GL4 A;  4JBD A;  5IWE A;  3EDN A;  1SDJ A;  1QYA A;  1U0K A;  3G98 A;  4K8L A;  3WQZ A;  1XUB A;  3W5W A;  2GKE A;  2ZXP A;  4JUU A;  1W62 A;  1WPP A;  3FVE A;  2ZXO A;  1BWZ A;  5GL2 A;  1U1X A;  4IK0 A;  1WPN A;  2YMA A;  2PW0 A;  1WPM A;  5ANP A;  4Q60 A;  3PVH A;  4JD7 A;  3EJX A;  3PW9 A;  4LB0 A;  2KW7 A;  4PY9 A;  1U1W A;  2EB0 A;  2ZXR A;  2H9F A;  2QB8 A;  4K7X A;  2IW4 A;  5H2Y A;  2QB6 A;  3DEV A;  1TM0 A;  5H2G A;  4FC5 A;  4K7G B;  2ZVF A;  2MPB A;  4DWZ A;  2KPT A;  2OTN A;  4OA3 A;  4Q2H A;  4LS9 A;  4RPA A;  1W61 A;  4J9W A;  5M47 A;  4LG3 A;  2Q9H A;  4JCI A;  1T6K A;  2GKJ A;  5GL3 A;  1IR6 A;  2LT2 A;  2Q9J A;  1GQZ A;  1K23 A;  4DUN A;  2PVZ A;  1K20 A;  3PTJ A;  2AZP A;  1I74 A;  5GKX A;  3G7K A;  5HA4 A;  1XUA A;  2ENX A;  1U1V 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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