1SDJA

X-ray structure of ydde_ecoli northeast structural genomics consortium target et25.
Total Genus 72
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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
72
sequence length
310
structure length
310
Chain Sequence
SGRENLYFQGHMKPQVYHVDAFTSQPFRGNSAGVVFPADNLSEAQMQLIARELGHSETAFLLHSDDSDVRIRYFTPTVEVPICGHATVAAHYVRAKVLGLGNCTIWQTSLAGKHRVTIEKHNDDYRISLEQGTPGFEPPLEGETRAAIINALHLTEDDILPGLPIQVATTGHSKVMIPLKPEVDIDALSPDLNALTAISKKIGCNGFFPFQIRPGKNETDGRMFSPAIGIVEDPVTGNANGPMGAWLVHHNVLPHDGNVLRVKGHQGRALGRDGMIEVTVTIRDNQPEKVTISGTAVILFHAEWAIELGS
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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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molecule tags Structural genomics, unknown function
molecule keywords Hypothetical protein yddE
publication title Structure and function of the phenazine biosynthetic protein PhzF from Pseudomonas fluorescens.
pubmed doi rcsb
source organism Escherichia coli
total genus 72
structure length 310
sequence length 310
ec nomenclature
pdb deposition date 2004-02-13

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02567 PhzC-PhzF Phenazine biosynthesis-like protein
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 1sdjA01
3.10.310.10 Alpha Beta Roll Diaminopimelate Epimerase; Chain A, domain 1 Diaminopimelate Epimerase; Chain A, domain 1 1sdjA02
3FVEA 2OTNA 4IK0A 2PW0A 2Q9JA 4JCIA 1U1WA 1QY9A 4IJZA 5M47A 1SDJA 3EJXA 4Q2HA 2H9FA 2PVZA 4DUNA 4LB0A 1QYAA 2GKEA 1XUAA 4JD7A 4Q60A 5IWEA 3EDNA 1U1VA 3G7KA 4K7GB 2Q9HA 1GQZA 4K8LA 1S7JA 4J9WA 4JBDA 4K7XA 5HA4A 2AZPA 5H2GA 1W61A 3EKMA 1T6KA 4JUUA 1U1XA 1W62A 1XUBA 1TM0A 2GKJA 4J9XA 1YM5A 1BWZA 1U0KA 5H2YA
chains in the Genus database with same CATH superfamily
2OTNA 4PY9A 4IK0A 4LG3A 2PW0A 2ZVFA 4JCIA 1U1WA 2LT2A 2QB6A 1SDJA 2EB0A 1K20A 3DEVA 1XUAA 2ZXPA 4Q60A 3EDNA 3G7KA 2Q9HA 4K7XA 5H2GA 2QB8A 2GKJA 3WQZA 4RPAA 2IW4A 3EJXA 4DUNA 2H9FA 4LB0A 3ICJA 2MPBA 3IGHX 5IWEA 2KW7A 2ENXA 2AZPA 1W61A 2ZXRA 1XUBA 1TM0A 1YM5A 1BWZA 5H2YA 1IR6A 1WPPA 3FVEA 1I74A 1K23A 4Q2HA 2PVZA 5ANPA 3W5WA 1QYAA 2KPTA 4LS9A 4K8LA 4J9WA 4JBDA 4OA3A 2QB7A 3EKMA 4JUUA 1W62A 4J9XA 2YMAA 1U0KA 3G98A 2ZXOA 2Q9JA 4IJZA 1QY9A 5M47A 2GKEA 2HAWA 3PW9A 4JD7A 3PTJA 1WPMA 1U1VA 4K7GB 1GQZA 1S7JA 5HA4A 4GL6A 1T6KA 1U1XA 3PVHA
chains in the Genus database with same CATH topology
2OTNA 4PY9A 4IK0A 4LG3A 2PW0A 2ZVFA 4JCIA 1U1WA 2LT2A 2QB6A 1SDJA 2EB0A 1K20A 3DEVA 1XUAA 2ZXPA 4Q60A 3EDNA 3G7KA 2Q9HA 4K7XA 5H2GA 2QB8A 2GKJA 3WQZA 4RPAA 2IW4A 3EJXA 4DUNA 2H9FA 4LB0A 3ICJA 2MPBA 3IGHX 5IWEA 2KW7A 2ENXA 2AZPA 1W61A 2ZXRA 1XUBA 1TM0A 1YM5A 1BWZA 5H2YA 1IR6A 1WPPA 3FVEA 1I74A 1K23A 4Q2HA 2PVZA 5ANPA 3W5WA 1QYAA 2KPTA 4LS9A 4K8LA 4J9WA 4JBDA 4OA3A 2QB7A 3EKMA 4JUUA 1W62A 4J9XA 2YMAA 1U0KA 3G98A 2ZXOA 2Q9JA 4IJZA 1QY9A 5M47A 2GKEA 2HAWA 3PW9A 4JD7A 3PTJA 1WPMA 1U1VA 4K7GB 1GQZA 1S7JA 5HA4A 4GL6A 1T6KA 1U1XA 3PVHA
chains in the Genus database with same CATH homology


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