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
b'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 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
molecule tags Structural genomics, unknown function
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
2AZPA 4JUUA 5H2YA 2PW0A 4Q2HA 2PVZA 1BWZA 4JBDA 3EJXA 5M47A 1U1WA 1XUBA 1TM0A 4DUNA 1QYAA 2OTNA 2GKJA 1W62A 1S7JA 1SDJA 2GKEA 1YM5A 4J9XA 1QY9A 3EKMA 2Q9HA 1XUAA 1GQZA 4JCIA 4K7XA 2Q9JA 3FVEA 4K7GB 1T6KA 3G7KA 1U0KA 4Q60A 2H9FA 4IK0A 4JD7A 4LB0A 1U1XA 5HA4A 4IJZA 5H2GA 1W61A 1U1VA 3EDNA 4J9WA 5IWEA 4K8LA
chains in the Genus database with same CATH superfamily
1WPPA 2ZXOA 1IR6A 1BWZA 3PTJA 2ENXA 1XUBA 4DUNA 2OTNA 2HAWA 4RPAA 3EKMA 5ANPA 1XUAA 2ZVFA 2QB6A 4JCIA 4K7XA 2KPTA 1T6KA 4JD7A 1W61A 1U1VA 2MPBA 3W5WA 1I74A 4K8LA 2PVZA 4JBDA 1U1WA 3ICJA 1TM0A 1QYAA 4J9XA 2Q9HA 2ZXPA 3DEVA 4K7GB 4IK0A 4LB0A 1U1XA 2IW4A 3G98A 2AZPA 4JUUA 3EJXA 3PW9A 1SDJA 2GKEA 2LT2A 3IGHX 1YM5A 1QY9A 1K23A 1GQZA 4PY9A 2Q9JA 3G7KA 1U0KA 2H9FA 5H2GA 4OA3A 1WPMA 5H2YA 2PW0A 4Q2HA 2EB0A 5M47A 2QB7A 2QB8A 2ZXRA 2GKJA 1W62A 1S7JA 3PVHA 4LG3A 3WQZA 3FVEA 2KW7A 2YMAA 4Q60A 5HA4A 4IJZA 4GL6A 3EDNA 4J9WA 4LS9A 5IWEA 1K20A
chains in the Genus database with same CATH topology
1WPPA 2ZXOA 1IR6A 1BWZA 3PTJA 2ENXA 1XUBA 4DUNA 2OTNA 2HAWA 4RPAA 3EKMA 5ANPA 1XUAA 2ZVFA 2QB6A 4JCIA 4K7XA 2KPTA 1T6KA 4JD7A 1W61A 1U1VA 2MPBA 3W5WA 1I74A 4K8LA 2PVZA 4JBDA 1U1WA 3ICJA 1TM0A 1QYAA 4J9XA 2Q9HA 2ZXPA 3DEVA 4K7GB 4IK0A 4LB0A 1U1XA 2IW4A 3G98A 2AZPA 4JUUA 3EJXA 3PW9A 1SDJA 2GKEA 2LT2A 3IGHX 1YM5A 1QY9A 1K23A 1GQZA 4PY9A 2Q9JA 3G7KA 1U0KA 2H9FA 5H2GA 4OA3A 1WPMA 5H2YA 2PW0A 4Q2HA 2EB0A 5M47A 2QB7A 2QB8A 2ZXRA 2GKJA 1W62A 1S7JA 3PVHA 4LG3A 3WQZA 3FVEA 2KW7A 2YMAA 4Q60A 5HA4A 4IJZA 4GL6A 3EDNA 4J9WA 4LS9A 5IWEA 1K20A
chains in the Genus database with same CATH homology


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