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