4DZ4A

X-ray crystal structure of a hypothetical agmatinase from burkholderia thailandensis
Total Genus 119
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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
119
Knots found
sequence length
316
structure length
313
Chain Sequence
TLYGDGAIRRPSVYGSSIENTYAGVLSFMRRNYTRDLDGVDVVVSGVPLDLATTFRSGARLGPSAVRAASVQLAELNPYPWGFDPFDDLAVIDYGDCWFDAHHPLSIKPAIVEHARTILQSDARMLTLGGDHYITYPLLIAHAQKYGKPLSLIHFDAHCDTWADDSLNHGTMFYKAVKDGLIDPKASVQVGIRTWNDDYLGINVLDAAWVHEHGARATLERIESIVGGRPAYLTFDIDCLDPAFAPGTGTPVAGGLSSAQALAIVRGLGGVNLIGADVVEVAPAYDQSEITAIAAAHVACDLLCLWRQRKAGA
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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 Agmatinase
publication title Combining functional and structural genomics to sample the essential Burkholderia structome.
pubmed doi rcsb
source organism Burkholderia thailandensis
molecule tags Hydrolase
total genus 119
structure length 313
sequence length 316
chains with identical sequence B, C, D, E, F
other databases KnotProt 2.0: S +31
ec nomenclature ec 3.5.3.11: Agmatinase.
pdb deposition date 2012-02-29

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00491 Arginase Arginase family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.800.10 Alpha Beta 3-Layer(aba) Sandwich Arginase; Chain A Ureohydrolase domain 4dz4A00
2PHAA 3SL1A 1D3VA 1P8RA 3THHA 2CEVA 4FCIA 2EF5A 4RHJA 1P8SA 1WVAA 1HQHA 1WOGA 4HXQA 1T4PA 3TF3A 1WOIA 3E6VA 3GMZA 1ZPGA 4RHKA 4IE1A 4Q3QA 1WVBA 4RHLA 3MFVA 4RHQA 4Q3RA 1TBHA 4MYFA 4Q3TA 4Q3PA 1WOHA 4IU4A 3E8QA 1T5GA 1T5FA 4IXVA 1TA1A 3THJA 4CEVA 3SL0A 4RLAA 3MJLA 4FCKA 4IE2A 4Q42A 4DZ4A 4Q40A 1PQ3A 3E6KA 3PZLA 4G3HA 1T4TA 2A0MA 4Q3VA 4I06A 1T4SA 3LP4A 3MMRA 3GN0A 4GSMA 4Q3SA 1P8PA 1TBJA 3SJTA 5CEVA 4HWWA 3TH7A 1ZPEA 4MYKA 4HZEA 4RHMA 4IU1A 1XFKA 4MYLA 3NIQA 5RLAA 4IU0A 3E8ZA 3NIOA 1HQGA 4GSVA 2ZAVA 4RHIA 3NIPA 3LHLA 4MXRA 3THEA 2EF4A 2RLAA 2PLLA 4Q3UA 1TBLA 3DJ8A 3LP7A 1P8MA 4GWDA 2EIVA 2PHOA 3E9BA 1GQ6A 1CEVA 2AEBA 3MFWA 4Q3RC 1R1OA 3SKKA 1T4RA 4GWCA 1HQXA 5HJ9A 5HJAA 4IXUA 1GQ7A 4IE3A 1HQ5A 3CEVA 1P8QA 4MYNA 4IU5A 1P8OA 3KV2A 1HQFA 1P8NA 3M1RA 4ITYA 3F80A 4Q41A 4GSZA 3RLAA 1RLAA
chains in the Genus database with same CATH superfamily
5G0YA 2PHAA 3SL1A 3F0RA 5G3WA 1D3VA 3Q9CA 3SFFA 1P8RA 3THHA 2CEVA 4FCIA 5EEFA 2EF5A 5THVA 4RHJA 1P8SA 1WVAA 5DC7A 1HQHA 1WOGA 4HXQA 1T4PA 3ZNRA 1WOIA 3EWFA 3E6VA 5G0HA 5THTA 3TF3A 1ZZ3A 5D1CA 3EW8A 3GMZA 5EF8A 3Q9EA 4CBTA 2VQWG 1ZPGA 5DC5A 1T64A 4RHKA 3F06A 4IE1A 5G1BA 4BKXB 2VQJA 4Q3QA 1WVBA 4RHLA 5EFBD 3MFVA 4RHQA 4Q3RA 5FUEA 1TBHA 4MYFA 5D1BA 4Q3TA 3F07A 4Q3PA 4RN2A 5ICNB 1WOHA 1ZZ1A 5JI5A 4IU4A 3E8QA 2VQOA 5EFKB 3MZ3A 4LXZA 1T5GA 1T69A 4QA7A 5FCWA 4BZ9A 4ZUQA 1T5FA 5IX0A 5EF7A 4CBYA 4IXVA 3EZPA 1TA1A 3C0YA 5G0JA 3C10A 3THJA 4CEVA 3SL0A 5LI3A 4RLAA 3MJLA 4FCKA 4BZ6A 1T67A 4IE2A 3MZ6A 5EFGA 4Q42A 5BWZA 4DZ4A 3MENA 4Q40A 3EZTA 1PQ3A 3E6KA 3PZLA 4G3HA 4QA3A 5EEKA 1T4TA 1C3RA 2A0MA 4QA0A 4ZUNA 5G0IA 4Q3VA 4RN0A 4I06A 2VQVA 1T4SA 1VKGA 3Q9BA 5EFNA 3LP4A 4ZURA 3MMRA 2VQMA 3GN0A 5A2SA 4GSMA 4Q3SA 1P8PA 1TBJA 5G0GA 3SJTA 5CEVA 5G10A 4HWWA 3TH7A 1ZPEA 2GH6A 4HZEA 4MYKA 5EFHA 4RHMA 4RN1A 5D1DA 4IU1A 5THSA 4A69A 4ZUPA 1XFKA 4MYLA 2V5WA 3NIQA 5RLAA 4IU0A 3RQDA 3MZ4A 4QA4A 5G1AA 3E8ZA 3NIOA 1HQGA 4GSVA 5EEIA 2ZAVA 4RHIA 3NIPA 3LHLA 3MAXA 4MXRA 5EENA 5EEMA 3THEA 2EF4A 4CQFA 2RLAA 2PLLA 2VQQA 3Q9FA 4Q3UA 1TBLA 1ZZ0A 5IWGA 4BZ5A 5DC8A 3DJ8A 5DC6A 3LP7A 3C0ZA 4ZUMA 4BZ8A 3MZ7A 1P8MA 4GWDA 2EIVA 2PHOA 3E9BA 5G1CA 1CEVA 1GQ6A 1C3PA 2AEBA 5THUA 3MFWA 3SFHA 5G17A 4Q3RC 1R1OA 3SKKA 5G13A 1T4RA 4GWCA 1HQXA 5HJ9A 1W22A 5HJAA 4QA5A 5EFJD 5G11A 4IXUA 1C3SA 1GQ7A 3ZNSA 4IE3A 1HQ5A 3CEVA 1P8QA 4MYNA 4IU5A 4LY1A 1P8OA 4BZ7A 3KV2A 1HQFA 5G12A 1P8NA 2VCGA 4QA2A 3M1RA 4ITYA 4ZUOA 3F80A 4Q41A 4GSZA 4QA6A 4QA1A 3RLAA 1RLAA 2V5XA 5G0XA
chains in the Genus database with same CATH topology
2PHAA 3SL1A 1D3VA 1P8RA 3THHA 2CEVA 4FCIA 2EF5A 4RHJA 1P8SA 1WVAA 1HQHA 1WOGA 4HXQA 1T4PA 3TF3A 1WOIA 3E6VA 3GMZA 1ZPGA 4RHKA 4IE1A 4Q3QA 1WVBA 4RHLA 3MFVA 4RHQA 4Q3RA 1TBHA 4MYFA 4Q3TA 4Q3PA 1WOHA 4IU4A 3E8QA 1T5GA 1T5FA 4IXVA 1TA1A 3THJA 4CEVA 3SL0A 4RLAA 3MJLA 4FCKA 4IE2A 4Q42A 4DZ4A 4Q40A 1PQ3A 3E6KA 3PZLA 4G3HA 1T4TA 2A0MA 4Q3VA 4I06A 1T4SA 3LP4A 3MMRA 3GN0A 4GSMA 4Q3SA 1P8PA 1TBJA 3SJTA 5CEVA 4HWWA 3TH7A 1ZPEA 4MYKA 4HZEA 4RHMA 4IU1A 1XFKA 4MYLA 3NIQA 5RLAA 4IU0A 3E8ZA 3NIOA 1HQGA 4GSVA 2ZAVA 4RHIA 3NIPA 3LHLA 4MXRA 3THEA 2EF4A 2RLAA 2PLLA 4Q3UA 1TBLA 3DJ8A 3LP7A 1P8MA 4GWDA 2EIVA 2PHOA 3E9BA 1GQ6A 1CEVA 2AEBA 3MFWA 4Q3RC 1R1OA 3SKKA 1T4RA 4GWCA 1HQXA 5HJ9A 5HJAA 4IXUA 1GQ7A 4IE3A 1HQ5A 3CEVA 1P8QA 4MYNA 4IU5A 1P8OA 3KV2A 1HQFA 1P8NA 3M1RA 4ITYA 3F80A 4Q41A 4GSZA 3RLAA 1RLAA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2PHA A;  3SL1 A;  1D3V A;  1P8R A;  3THH A;  2CEV A;  4FCI A;  2EF5 A;  4RHJ A;  1P8S A;  1WVA A;  1HQH A;  1WOG A;  4HXQ A;  1T4P A;  3TF3 A;  1WOI A;  3E6V A;  3GMZ A;  1ZPG A;  4RHK A;  4IE1 A;  4Q3Q A;  1WVB A;  4RHL A;  3MFV A;  4RHQ A;  4Q3R A;  1TBH A;  4MYF A;  4Q3T A;  4Q3P A;  1WOH A;  4IU4 A;  3E8Q A;  1T5G A;  1T5F A;  4IXV A;  1TA1 A;  3THJ A;  4CEV A;  3SL0 A;  4RLA A;  3MJL A;  4FCK A;  4IE2 A;  4Q42 A;  4DZ4 A;  4Q40 A;  1PQ3 A;  3E6K A;  3PZL A;  4G3H A;  1T4T A;  2A0M A;  4Q3V A;  4I06 A;  1T4S A;  3LP4 A;  3MMR A;  3GN0 A;  4GSM A;  4Q3S A;  1P8P A;  1TBJ A;  3SJT A;  5CEV A;  4HWW A;  3TH7 A;  1ZPE A;  4MYK A;  4HZE A;  4RHM A;  4IU1 A;  1XFK A;  4MYL A;  3NIQ A;  5RLA A;  4IU0 A;  3E8Z A;  3NIO A;  1HQG A;  4GSV A;  2ZAV A;  4RHI A;  3NIP A;  3LHL A;  4MXR A;  3THE A;  2EF4 A;  2RLA A;  2PLL A;  4Q3U A;  1TBL A;  3DJ8 A;  3LP7 A;  1P8M A;  4GWD A;  2EIV A;  2PHO A;  3E9B A;  1GQ6 A;  1CEV A;  2AEB A;  3MFW A;  4Q3R C;  1R1O A;  3SKK A;  1T4R A;  4GWC A;  1HQX A;  5HJ9 A;  5HJA A;  4IXU A;  1GQ7 A;  4IE3 A;  1HQ5 A;  3CEV A;  1P8Q A;  4MYN A;  4IU5 A;  1P8O A;  3KV2 A;  1HQF A;  1P8N A;  3M1R A;  4ITY A;  3F80 A;  4Q41 A;  4GSZ A;  3RLA A;  1RLA A; 
#chains in the Genus database with same CATH topology
 5G0Y A;  2PHA A;  3SL1 A;  3F0R A;  5G3W A;  1D3V A;  3Q9C A;  3SFF A;  1P8R A;  3THH A;  2CEV A;  4FCI A;  5EEF A;  2EF5 A;  5THV A;  4RHJ A;  1P8S A;  1WVA A;  5DC7 A;  1HQH A;  1WOG A;  4HXQ A;  1T4P A;  3ZNR A;  1WOI A;  3EWF A;  3E6V A;  5G0H A;  5THT A;  3TF3 A;  1ZZ3 A;  5D1C A;  3EW8 A;  3GMZ A;  5EF8 A;  3Q9E A;  4CBT A;  2VQW G;  1ZPG A;  5DC5 A;  1T64 A;  4RHK A;  3F06 A;  4IE1 A;  5G1B A;  4BKX B;  2VQJ A;  4Q3Q A;  1WVB A;  4RHL A;  5EFB D;  3MFV A;  4RHQ A;  4Q3R A;  5FUE A;  1TBH A;  4MYF A;  5D1B A;  4Q3T A;  3F07 A;  4Q3P A;  4RN2 A;  5ICN B;  1WOH A;  1ZZ1 A;  5JI5 A;  4IU4 A;  3E8Q A;  2VQO A;  5EFK B;  3MZ3 A;  4LXZ A;  1T5G A;  1T69 A;  4QA7 A;  5FCW A;  4BZ9 A;  4ZUQ A;  1T5F A;  5IX0 A;  5EF7 A;  4CBY A;  4IXV A;  3EZP A;  1TA1 A;  3C0Y A;  5G0J A;  3C10 A;  3THJ A;  4CEV A;  3SL0 A;  5LI3 A;  4RLA A;  3MJL A;  4FCK A;  4BZ6 A;  1T67 A;  4IE2 A;  3MZ6 A;  5EFG A;  4Q42 A;  5BWZ A;  4DZ4 A;  3MEN A;  4Q40 A;  3EZT A;  1PQ3 A;  3E6K A;  3PZL A;  4G3H A;  4QA3 A;  5EEK A;  1T4T A;  1C3R A;  2A0M A;  4QA0 A;  4ZUN A;  5G0I A;  4Q3V A;  4RN0 A;  4I06 A;  2VQV A;  1T4S A;  1VKG A;  3Q9B A;  5EFN A;  3LP4 A;  4ZUR A;  3MMR A;  2VQM A;  3GN0 A;  5A2S A;  4GSM A;  4Q3S A;  1P8P A;  1TBJ A;  5G0G A;  3SJT A;  5CEV A;  5G10 A;  4HWW A;  3TH7 A;  1ZPE A;  2GH6 A;  4HZE A;  4MYK A;  5EFH A;  4RHM A;  4RN1 A;  5D1D A;  4IU1 A;  5THS A;  4A69 A;  4ZUP A;  1XFK A;  4MYL A;  2V5W A;  3NIQ A;  5RLA A;  4IU0 A;  3RQD A;  3MZ4 A;  4QA4 A;  5G1A A;  3E8Z A;  3NIO A;  1HQG A;  4GSV A;  5EEI A;  2ZAV A;  4RHI A;  3NIP A;  3LHL A;  3MAX A;  4MXR A;  5EEN A;  5EEM A;  3THE A;  2EF4 A;  4CQF A;  2RLA A;  2PLL A;  2VQQ A;  3Q9F A;  4Q3U A;  1TBL A;  1ZZ0 A;  5IWG A;  4BZ5 A;  5DC8 A;  3DJ8 A;  5DC6 A;  3LP7 A;  3C0Z A;  4ZUM A;  4BZ8 A;  3MZ7 A;  1P8M A;  4GWD A;  2EIV A;  2PHO A;  3E9B A;  5G1C A;  1CEV A;  1GQ6 A;  1C3P A;  2AEB A;  5THU A;  3MFW A;  3SFH A;  5G17 A;  4Q3R C;  1R1O A;  3SKK A;  5G13 A;  1T4R A;  4GWC A;  1HQX A;  5HJ9 A;  1W22 A;  5HJA A;  4QA5 A;  5EFJ D;  5G11 A;  4IXU A;  1C3S A;  1GQ7 A;  3ZNS A;  4IE3 A;  1HQ5 A;  3CEV A;  1P8Q A;  4MYN A;  4IU5 A;  4LY1 A;  1P8O A;  4BZ7 A;  3KV2 A;  1HQF A;  5G12 A;  1P8N A;  2VCG A;  4QA2 A;  3M1R A;  4ITY A;  4ZUO A;  3F80 A;  4Q41 A;  4GSZ A;  4QA6 A;  4QA1 A;  3RLA A;  1RLA A;  2V5X A;  5G0X A; 
#chains in the Genus database with same CATH homology
 2PHA A;  3SL1 A;  1D3V A;  1P8R A;  3THH A;  2CEV A;  4FCI A;  2EF5 A;  4RHJ A;  1P8S A;  1WVA A;  1HQH A;  1WOG A;  4HXQ A;  1T4P A;  3TF3 A;  1WOI A;  3E6V A;  3GMZ A;  1ZPG A;  4RHK A;  4IE1 A;  4Q3Q A;  1WVB A;  4RHL A;  3MFV A;  4RHQ A;  4Q3R A;  1TBH A;  4MYF A;  4Q3T A;  4Q3P A;  1WOH A;  4IU4 A;  3E8Q A;  1T5G A;  1T5F A;  4IXV A;  1TA1 A;  3THJ A;  4CEV A;  3SL0 A;  4RLA A;  3MJL A;  4FCK A;  4IE2 A;  4Q42 A;  4DZ4 A;  4Q40 A;  1PQ3 A;  3E6K A;  3PZL A;  4G3H A;  1T4T A;  2A0M A;  4Q3V A;  4I06 A;  1T4S A;  3LP4 A;  3MMR A;  3GN0 A;  4GSM A;  4Q3S A;  1P8P A;  1TBJ A;  3SJT A;  5CEV A;  4HWW A;  3TH7 A;  1ZPE A;  4MYK A;  4HZE A;  4RHM A;  4IU1 A;  1XFK A;  4MYL A;  3NIQ A;  5RLA A;  4IU0 A;  3E8Z A;  3NIO A;  1HQG A;  4GSV A;  2ZAV A;  4RHI A;  3NIP A;  3LHL A;  4MXR A;  3THE A;  2EF4 A;  2RLA A;  2PLL A;  4Q3U A;  1TBL A;  3DJ8 A;  3LP7 A;  1P8M A;  4GWD A;  2EIV A;  2PHO A;  3E9B A;  1GQ6 A;  1CEV A;  2AEB A;  3MFW A;  4Q3R C;  1R1O A;  3SKK A;  1T4R A;  4GWC A;  1HQX A;  5HJ9 A;  5HJA A;  4IXU A;  1GQ7 A;  4IE3 A;  1HQ5 A;  3CEV A;  1P8Q A;  4MYN A;  4IU5 A;  1P8O A;  3KV2 A;  1HQF A;  1P8N A;  3M1R A;  4ITY A;  3F80 A;  4Q41 A;  4GSZ A;  3RLA A;  1RLA 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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