2GP4A

Structure of [fes]cluster-free apo form of 6-phosphogluconate dehydratase from shewanella oneidensis
Total Genus 157
Loading diagram...

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
157
sequence length
609
structure length
523
Chain Sequence
HMHSVVQSVTDRIIARSKASREAYLAALNDARNHLLKQEVGSVAQVAGVPCDGVTQGQPGMELSLLSREVIAMATAVGLSHNMFDGALLLGICDKIVPGLLIGALSFGHLPMLFVPAGPGKVDRAQLLEAEAQSYHSAGTCTFYGQLMLEVMGLQLPGSSFVNPDDPLREALNKMAAKQVCRLTELGTQYSPIGEVVNEKSIVNGIVALLATGGSTNLTMHIVAAARAAGIIVNWDDFSELSDAVPLLARVYPNGHADINHFHAAGGMAFLIKELLDAGLLHEDVNTVAGYGLRRYTQEPKLLDGELRWVDGPTVSLDTEVLTSVATPFQNNGGLKLLKGNLGRAVIKVSAVQPQHRVVEAPAVVIDDQNKLDALFKSGALDRDCVVVVKGQGPKANGMPELHKLTPLLGSLQDKGFKVALMTDGRMSGASGKVPAAIHLTPEAIDGGLIAKVQDGDLIRVDALTGELSLLVSDTELATRTATEIDLRHSRYGMGRELFGVLRSNLSSPETGARSTSAIDELY
Loading diagram...

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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
molecule tags Lyase
molecule keywords 6-phosphogluconate dehydratase
publication title Structure of [FeS]cluster-free Apo Form of 6-Phosphogluconate Dehydratase from Shewanella oneidensis
rcsb
source organism Shewanella oneidensis
total genus 157
structure length 523
sequence length 609
chains with identical sequence B
ec nomenclature ec 4.2.1.12: Phosphogluconate dehydratase.
pdb deposition date 2006-04-16

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00920 ILVD_EDD Dehydratase family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.50.30.80 Alpha Beta 3-Layer(bba) Sandwich Glucose Oxidase; domain 1 Glucose Oxidase; domain 1 2gp4A03
2GP4A
chains in the Genus database with same CATH superfamily
3SJFA 3FF3A 4MI1A 3TLCA 4C86A 4C8PA 2HROA 4C99A 1DIKA 1NXJA 4OMEA 3T5MA 3BI1A 5JVLA 4CDKA 3KRVA 2EZBA 1VI4A 1XF1A 3TLBA 3S9MA 4P4JA 4W9YA 5F1YA 2YJVA 3EZBA 4TJVA 3SJXA 4MJXA 4MCRA 2B0AA 4P4BA 4TWEA 5F9MA 1JDBC 2CIJA 4NGQA 4NGMA 4COGA 2FM4A 2XEGA 4KNGE 3S9LA 4EYSA 3I74A 4C8TA 2D0PA 3EZAA 3TYXA 3FEDA 5FD8A 3VTAA 1ZRSA 4NGRA 4COBA 1V6CA 3ICUA 4P45A 4C9UA 3I6SA 4TJXA 4MCSA 4J0NA 4MCQA 3TLZA 1R61A 3BXMA 3D7DA 4C8FA 1EZBA 4NGSA 2EK8A 4C8CA 4INJA 2OR4A 3EIFA 1CE8B 4M8DA 1C3OB 2C6GA 4JVOA 2MP0A 5ELYA 2PVVA 4CDJA 1A9XB 2EZCA 4JZ0A 4P4EA 4C84A 2HWGA 1WVMA 3IWWA 3TLGB 4C8AA 2JBKA 4P44A 4IIXA 4C9AA 4E5SA 1Y9ZA 2R82A 3FECA 3TLGA 5JYBA 2DIKA 2PVWA 4OC2A 3TLAA 3EZEA 3K9TA 2OOTA 4YN3A 3SJEA 3TLEA 2JBJA 4CO9A 1EZAA 1VBGA 4OC0A 4P4FA 4IIYA 4X3RA 2EZAA 4OC4A 1JDEA 5K99A 1VBHA 4C9RA 3T07A 2XEFA 2PCNA 2D0OA 1GGOA 2C5QA 2XEIA 4OC1A 5IR2A 1NBWA 3T0TA 1C30B 3S9NA 3U1BA 3C8OA 3BHXA 3TLYA 2GP4A 3SR3A 3FEEA 1CS0B 1ZYMA 2AUNA 2AUMA 3BI0A 1J3LA 4OC3A 2HI6A 4LQGA 4NGNA 3D7FA 2OLSA 1KC7A 4P4IA 4C8UA 4NGPA 3RBUA 3D7HA 1KEEB 1Z8LA 4JYWA 1ZL0A 4H1HA 2E28A 4NGTA 5F5XA 1BXRB 4OC5A 2EK9A 1Q5XA 2XEJA 4MCPA 4C85A 3IIBA 3K4IA 2YJTA 3D7GA 1M6VB 2C6PA 5F09A 1CX8A 3SJGA 4C9VA 1T36B 3NOJA 2X0SA 1KBLA 5D29A 3KASA 2C6CA 4E94A 3G23A 1DE4C 3GJZA 4P4DA 5IB9A 3T05A 4CZ1A 4C9EA
chains in the Genus database with same CATH topology
3SJFA 3FF3A 4C86A 4C8PA 4C99A 4OMEA 3BI1A 4CDKA 1XF1A 3S9MA 4P4JA 4W9YA 4TJVA 3SJXA 4MCRA 4P4BA 4TWEA 2CIJA 4NGQA 4NGMA 2XEGA 4KNGE 3S9LA 3I74A 4C8TA 3FEDA 3VTAA 4NGRA 1V6CA 3ICUA 4P45A 4C9UA 3I6SA 4TJXA 4MCSA 4MCQA 3BXMA 3D7DA 4C8FA 4NGSA 2EK8A 4C8CA 2OR4A 3EIFA 2C6GA 5ELYA 2PVVA 4CDJA 4JZ0A 4P4EA 4C84A 1WVMA 3IWWA 4C8AA 4P44A 2JBKA 4C9AA 1Y9ZA 3FECA 2PVWA 4OC2A 3K9TA 3SJEA 2OOTA 4YN3A 2JBJA 4OC0A 4P4FA 4X3RA 4OC4A 4C9RA 2XEFA 2XEIA 2C5QA 4OC1A 5IR2A 3S9NA 3BHXA 2GP4A 3FEEA 3BI0A 4OC3A 4LQGA 4NGNA 3D7FA 4P4IA 4C8UA 4NGPA 3RBUA 3D7HA 1Z8LA 4JYWA 4NGTA 4OC5A 2EK9A 2XEJA 4MCPA 4C85A 3IIBA 3D7GA 2C6PA 5F09A 1CX8A 3SJGA 4C9VA 5D29A 3KASA 2C6CA 1DE4C 4P4DA 5IB9A 4C9EA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2GP4 A; 
#chains in the Genus database with same CATH topology
 3SJF A;  3FF3 A;  4MI1 A;  3TLC A;  4C86 A;  4C8P A;  2HRO A;  4C99 A;  1DIK A;  1NXJ A;  4OME A;  3T5M A;  3BI1 A;  5JVL A;  4CDK A;  3KRV A;  2EZB A;  1VI4 A;  1XF1 A;  3TLB A;  3S9M A;  4P4J A;  4W9Y A;  5F1Y A;  2YJV A;  3EZB A;  4TJV A;  3SJX A;  4MJX A;  4MCR A;  2B0A A;  4P4B A;  4TWE A;  5F9M A;  1JDB C;  2CIJ A;  4NGQ A;  4NGM A;  4COG A;  2FM4 A;  2XEG A;  4KNG E;  3S9L A;  4EYS A;  3I74 A;  4C8T A;  2D0P A;  3EZA A;  3TYX A;  3FED A;  5FD8 A;  3VTA A;  1ZRS A;  4NGR A;  4COB A;  1V6C A;  3ICU A;  4P45 A;  4C9U A;  3I6S A;  4TJX A;  4MCS A;  4J0N A;  4MCQ A;  3TLZ A;  1R61 A;  3BXM A;  3D7D A;  4C8F A;  1EZB A;  4NGS A;  2EK8 A;  4C8C A;  4INJ A;  2OR4 A;  3EIF A;  1CE8 B;  4M8D A;  1C3O B;  2C6G A;  4JVO A;  2MP0 A;  5ELY A;  2PVV A;  4CDJ A;  1A9X B;  2EZC A;  4JZ0 A;  4P4E A;  4C84 A;  2HWG A;  1WVM A;  3IWW A;  3TLG B;  4C8A A;  2JBK A;  4P44 A;  4IIX A;  4C9A A;  4E5S A;  1Y9Z A;  2R82 A;  3FEC A;  3TLG A;  5JYB A;  2DIK A;  2PVW A;  4OC2 A;  3TLA A;  3EZE A;  3K9T A;  2OOT A;  4YN3 A;  3SJE A;  3TLE A;  2JBJ A;  4CO9 A;  1EZA A;  1VBG A;  4OC0 A;  4P4F A;  4IIY A;  4X3R A;  2EZA A;  4OC4 A;  1JDE A;  5K99 A;  1VBH A;  4C9R A;  3T07 A;  2XEF A;  2PCN A;  2D0O A;  1GGO A;  2C5Q A;  2XEI A;  4OC1 A;  5IR2 A;  1NBW A;  3T0T A;  1C30 B;  3S9N A;  3U1B A;  3C8O A;  3BHX A;  3TLY A;  2GP4 A;  3SR3 A;  3FEE A;  1CS0 B;  1ZYM A;  2AUN A;  2AUM A;  3BI0 A;  1J3L A;  4OC3 A;  2HI6 A;  4LQG A;  4NGN A;  3D7F A;  2OLS A;  1KC7 A;  4P4I A;  4C8U A;  4NGP A;  3RBU A;  3D7H A;  1KEE B;  1Z8L A;  4JYW A;  1ZL0 A;  4H1H A;  2E28 A;  4NGT A;  5F5X A;  1BXR B;  4OC5 A;  2EK9 A;  1Q5X A;  2XEJ A;  4MCP A;  4C85 A;  3IIB A;  3K4I A;  2YJT A;  3D7G A;  1M6V B;  2C6P A;  5F09 A;  1CX8 A;  3SJG A;  4C9V A;  1T36 B;  3NOJ A;  2X0S A;  1KBL A;  5D29 A;  3KAS A;  2C6C A;  4E94 A;  3G23 A;  1DE4 C;  3GJZ A;  4P4D A;  5IB9 A;  3T05 A;  4CZ1 A;  4C9E A; 
#chains in the Genus database with same CATH homology
 3SJF A;  3FF3 A;  4C86 A;  4C8P A;  4C99 A;  4OME A;  3BI1 A;  4CDK A;  1XF1 A;  3S9M A;  4P4J A;  4W9Y A;  4TJV A;  3SJX A;  4MCR A;  4P4B A;  4TWE A;  2CIJ A;  4NGQ A;  4NGM A;  2XEG A;  4KNG E;  3S9L A;  3I74 A;  4C8T A;  3FED A;  3VTA A;  4NGR A;  1V6C A;  3ICU A;  4P45 A;  4C9U A;  3I6S A;  4TJX A;  4MCS A;  4MCQ A;  3BXM A;  3D7D A;  4C8F A;  4NGS A;  2EK8 A;  4C8C A;  2OR4 A;  3EIF A;  2C6G A;  5ELY A;  2PVV A;  4CDJ A;  4JZ0 A;  4P4E A;  4C84 A;  1WVM A;  3IWW A;  4C8A A;  4P44 A;  2JBK A;  4C9A A;  1Y9Z A;  3FEC A;  2PVW A;  4OC2 A;  3K9T A;  3SJE A;  2OOT A;  4YN3 A;  2JBJ A;  4OC0 A;  4P4F A;  4X3R A;  4OC4 A;  4C9R A;  2XEF A;  2XEI A;  2C5Q A;  4OC1 A;  5IR2 A;  3S9N A;  3BHX A;  2GP4 A;  3FEE A;  3BI0 A;  4OC3 A;  4LQG A;  4NGN A;  3D7F A;  4P4I A;  4C8U A;  4NGP A;  3RBU A;  3D7H A;  1Z8L A;  4JYW A;  4NGT A;  4OC5 A;  2EK9 A;  2XEJ A;  4MCP A;  4C85 A;  3IIB A;  3D7G A;  2C6P A;  5F09 A;  1CX8 A;  3SJG A;  4C9V A;  5D29 A;  3KAS A;  2C6C A;  1DE4 C;  4P4D A;  5IB9 A;  4C9E A; 
...loading similar chains, please wait...
similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...