2GP4A

Structure of [fes]cluster-free apo form of 6-phosphogluconate dehydratase from shewanella oneidensis
Total Genus 157
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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
157
sequence length
609
structure length
523
Chain Sequence
HMHSVVQSVTDRIIARSKASREAYLAALNDARNHLLKQEVGSVAQVAGVPCDGVTQGQPGMELSLLSREVIAMATAVGLSHNMFDGALLLGICDKIVPGLLIGALSFGHLPMLFVPAGPGKVDRAQLLEAEAQSYHSAGTCTFYGQLMLEVMGLQLPGSSFVNPDDPLREALNKMAAKQVCRLTELGTQYSPIGEVVNEKSIVNGIVALLATGGSTNLTMHIVAAARAAGIIVNWDDFSELSDAVPLLARVYPNGHADINHFHAAGGMAFLIKELLDAGLLHEDVNTVAGYGLRRYTQEPKLLDGELRWVDGPTVSLDTEVLTSVATPFQNNGGLKLLKGNLGRAVIKVSAVQPQHRVVEAPAVVIDDQNKLDALFKSGALDRDCVVVVKGQGPKANGMPELHKLTPLLGSLQDKGFKVALMTDGRMSGASGKVPAAIHLTPEAIDGGLIAKVQDGDLIRVDALTGELSLLVSDTELATRTATEIDLRHSRYGMGRELFGVLRSNLSSPETGARSTSAIDELY
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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 6-phosphogluconate dehydratase
publication title Structure of [FeS]cluster-free Apo Form of 6-Phosphogluconate Dehydratase from Shewanella oneidensis
rcsb
source organism Shewanella oneidensis
molecule tags Lyase
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
2HWGA 2PCNA 3BXMA 1NXJA 2E28A 4C86A 4C84A 4W9YA 2B0AA 4MJXA 3TLZA 1Z8LA 1BXRB 5IR2A 5JYBA 1EZAA 5D29A 1XF1A 2XEJA 4C9VA 4P44A 4JVOA 3I6SA 2JBKA 4MCPA 4P4JA 2MP0A 3T07A 3TLCA 3FECA 5F09A 3FEEA 2EK8A 3D7GA 2XEFA 3GJZA 2D0OA 2X0SA 1J3LA 2AUMA 4CZ1A 1ZYMA 3TLGB 2C6CA 4C8UA 4OC3A 1DE4C 2OOTA 4COGA 3C8OA 2C6PA 2DIKA 4C9RA 2AUNA 4E5SA 4M8DA 1M6VB 4C85A 5JVLA 2EZCA 1DIKA 2EZAA 4KNGE 1ZL0A 2FM4A 2YJTA 4C8CA 3TLEA 3EIFA 3TLGA 2CIJA 4IIYA 1C3OB 5K99A 4NGRA 3KASA 4MCRA 5ELYA 3VTAA 2OLSA 4CDJA 4NGPA 4TWEA 4CO9A 3T05A 4MI1A 4H1HA 3FF3A 4OC2A 1CE8B 4C9UA 3G23A 3TLBA 2HI6A 3SJEA 4C9AA 3BI0A 3K9TA 1VBGA 1VBHA 4P4EA 4C8PA 3SJXA 1V6CA 4P4DA 4OC4A 3T5MA 3TLAA 2YJVA 5F1YA 3TYXA 1CS0B 3K4IA 2C5QA 5FD8A 3I74A 1ZRSA 3S9NA 4C99A 3SJFA 3D7FA 3NOJA 4JYWA 1A9XB 3BI1A 1Q5XA 4NGTA 3EZEA 3IIBA 4P4BA 1KC7A 2D0PA 2EZBA 5F9MA 5F5XA 4JZ0A 1C30B 1JDBC 4J0NA 4EYSA 2C6GA 1Y9ZA 4NGNA 3BHXA 3EZAA 3FEDA 4IIXA 5IB9A 4OMEA 4TJXA 2GP4A 2HROA 4E94A 3TLYA 4P4FA 4C9EA 4COBA 2PVVA 3D7DA 4P45A 2R82A 4NGQA 4OC0A 4P4IA 3S9MA 4C8TA 2EK9A 2PVWA 3U1BA 1EZBA 2OR4A 1NBWA 1JDEA 3D7HA 1GGOA 3EZBA 3SJGA 3IWWA 4C8FA 1KBLA 4OC5A 4OC1A 2XEIA 1VI4A 3ICUA 4NGMA 3T0TA 4TJVA 1T36B 4X3RA 4C8AA 4MCSA 4CDKA 3RBUA 4INJA 3KRVA 4LQGA 2XEGA 1CX8A 4NGSA 2JBJA 3SR3A 1KEEB 1R61A 3S9LA 4MCQA 1WVMA 4YN3A
chains in the Genus database with same CATH topology
3BXMA 4C86A 4C84A 4W9YA 1Z8LA 5IR2A 5D29A 1XF1A 2XEJA 4C9VA 4P44A 3I6SA 2JBKA 4MCPA 4P4JA 3FECA 5F09A 3FEEA 2EK8A 3D7GA 2XEFA 2C6CA 4C8UA 4OC3A 1DE4C 2OOTA 2C6PA 4C9RA 4C85A 4KNGE 4C8CA 3EIFA 2CIJA 4NGRA 3KASA 4MCRA 5ELYA 3VTAA 4CDJA 4NGPA 4TWEA 3FF3A 4OC2A 4C9UA 3SJEA 4C9AA 3BI0A 3K9TA 4P4EA 4C8PA 3SJXA 1V6CA 4P4DA 4OC4A 2C5QA 3I74A 3S9NA 4C99A 3SJFA 3D7FA 4JYWA 3BI1A 4NGTA 3IIBA 4P4BA 4JZ0A 2C6GA 1Y9ZA 4NGNA 3BHXA 3FEDA 5IB9A 4OMEA 4TJXA 2GP4A 4P4FA 4C9EA 2PVVA 3D7DA 4P45A 4NGQA 4OC0A 4P4IA 3S9MA 4C8TA 2EK9A 2PVWA 2OR4A 3D7HA 3SJGA 3IWWA 4C8FA 4OC5A 4OC1A 2XEIA 3ICUA 4NGMA 4TJVA 4X3RA 4C8AA 4MCSA 4CDKA 3RBUA 4LQGA 2XEGA 1CX8A 4NGSA 2JBJA 3S9LA 4MCQA 1WVMA 4YN3A
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
 2HWG A;  2PCN A;  3BXM A;  1NXJ A;  2E28 A;  4C86 A;  4C84 A;  4W9Y A;  2B0A A;  4MJX A;  3TLZ A;  1Z8L A;  1BXR B;  5IR2 A;  5JYB A;  1EZA A;  5D29 A;  1XF1 A;  2XEJ A;  4C9V A;  4P44 A;  4JVO A;  3I6S A;  2JBK A;  4MCP A;  4P4J A;  2MP0 A;  3T07 A;  3TLC A;  3FEC A;  5F09 A;  3FEE A;  2EK8 A;  3D7G A;  2XEF A;  3GJZ A;  2D0O A;  2X0S A;  1J3L A;  2AUM A;  4CZ1 A;  1ZYM A;  3TLG B;  2C6C A;  4C8U A;  4OC3 A;  1DE4 C;  2OOT A;  4COG A;  3C8O A;  2C6P A;  2DIK A;  4C9R A;  2AUN A;  4E5S A;  4M8D A;  1M6V B;  4C85 A;  5JVL A;  2EZC A;  1DIK A;  2EZA A;  4KNG E;  1ZL0 A;  2FM4 A;  2YJT A;  4C8C A;  3TLE A;  3EIF A;  3TLG A;  2CIJ A;  4IIY A;  1C3O B;  5K99 A;  4NGR A;  3KAS A;  4MCR A;  5ELY A;  3VTA A;  2OLS A;  4CDJ A;  4NGP A;  4TWE A;  4CO9 A;  3T05 A;  4MI1 A;  4H1H A;  3FF3 A;  4OC2 A;  1CE8 B;  4C9U A;  3G23 A;  3TLB A;  2HI6 A;  3SJE A;  4C9A A;  3BI0 A;  3K9T A;  1VBG A;  1VBH A;  4P4E A;  4C8P A;  3SJX A;  1V6C A;  4P4D A;  4OC4 A;  3T5M A;  3TLA A;  2YJV A;  5F1Y A;  3TYX A;  1CS0 B;  3K4I A;  2C5Q A;  5FD8 A;  3I74 A;  1ZRS A;  3S9N A;  4C99 A;  3SJF A;  3D7F A;  3NOJ A;  4JYW A;  1A9X B;  3BI1 A;  1Q5X A;  4NGT A;  3EZE A;  3IIB A;  4P4B A;  1KC7 A;  2D0P A;  2EZB A;  5F9M A;  5F5X A;  4JZ0 A;  1C30 B;  1JDB C;  4J0N A;  4EYS A;  2C6G A;  1Y9Z A;  4NGN A;  3BHX A;  3EZA A;  3FED A;  4IIX A;  5IB9 A;  4OME A;  4TJX A;  2GP4 A;  2HRO A;  4E94 A;  3TLY A;  4P4F A;  4C9E A;  4COB A;  2PVV A;  3D7D A;  4P45 A;  2R82 A;  4NGQ A;  4OC0 A;  4P4I A;  3S9M A;  4C8T A;  2EK9 A;  2PVW A;  3U1B A;  1EZB A;  2OR4 A;  1NBW A;  1JDE A;  3D7H A;  1GGO A;  3EZB A;  3SJG A;  3IWW A;  4C8F A;  1KBL A;  4OC5 A;  4OC1 A;  2XEI A;  1VI4 A;  3ICU A;  4NGM A;  3T0T A;  4TJV A;  1T36 B;  4X3R A;  4C8A A;  4MCS A;  4CDK A;  3RBU A;  4INJ A;  3KRV A;  4LQG A;  2XEG A;  1CX8 A;  4NGS A;  2JBJ A;  3SR3 A;  1KEE B;  1R61 A;  3S9L A;  4MCQ A;  1WVM A;  4YN3 A; 
#chains in the Genus database with same CATH homology
 3BXM A;  4C86 A;  4C84 A;  4W9Y A;  1Z8L A;  5IR2 A;  5D29 A;  1XF1 A;  2XEJ A;  4C9V A;  4P44 A;  3I6S A;  2JBK A;  4MCP A;  4P4J A;  3FEC A;  5F09 A;  3FEE A;  2EK8 A;  3D7G A;  2XEF A;  2C6C A;  4C8U A;  4OC3 A;  1DE4 C;  2OOT A;  2C6P A;  4C9R A;  4C85 A;  4KNG E;  4C8C A;  3EIF A;  2CIJ A;  4NGR A;  3KAS A;  4MCR A;  5ELY A;  3VTA A;  4CDJ A;  4NGP A;  4TWE A;  3FF3 A;  4OC2 A;  4C9U A;  3SJE A;  4C9A A;  3BI0 A;  3K9T A;  4P4E A;  4C8P A;  3SJX A;  1V6C A;  4P4D A;  4OC4 A;  2C5Q A;  3I74 A;  3S9N A;  4C99 A;  3SJF A;  3D7F A;  4JYW A;  3BI1 A;  4NGT A;  3IIB A;  4P4B A;  4JZ0 A;  2C6G A;  1Y9Z A;  4NGN A;  3BHX A;  3FED A;  5IB9 A;  4OME A;  4TJX A;  2GP4 A;  4P4F A;  4C9E A;  2PVV A;  3D7D A;  4P45 A;  4NGQ A;  4OC0 A;  4P4I A;  3S9M A;  4C8T A;  2EK9 A;  2PVW A;  2OR4 A;  3D7H A;  3SJG A;  3IWW A;  4C8F A;  4OC5 A;  4OC1 A;  2XEI A;  3ICU A;  4NGM A;  4TJV A;  4X3R A;  4C8A A;  4MCS A;  4CDK A;  3RBU A;  4LQG A;  2XEG A;  1CX8 A;  4NGS A;  2JBJ A;  3S9L A;  4MCQ A;  1WVM A;  4YN3 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)

 
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