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