1V3YA

The crystal structure of peptide deformylase from thermus thermophilus hb8
Total Genus 45
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
45
sequence length
182
structure length
169
Chain Sequence
MVYPIRLYGDPVLRRKARPVEDFSGIKRLAEDMLETMFEAKGVGLAAPQIGLSQRLFVAVELRELVRRVYVVANPVITYREGLVEGTEGLSLPGLYSEEVPRAERIRVEYQDEEGRGRVLELEGYMARVFQHEIDHLDGILFFERLPKPKREAFLEANRAELVRFQKEA
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 Hydrolase
molecule keywords Peptide deformylase
publication title The crystal structure of peptide deformylase from Thermus thermophilus HB8
rcsb
source organism Thermus thermophilus
total genus 45
structure length 169
sequence length 182
chains with identical sequence B
ec nomenclature ec 3.5.1.88: Peptide deformylase.
pdb deposition date 2003-11-07

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01327 Pep_deformylase Polypeptide deformylase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.45.10 Alpha Beta Alpha-Beta Complex Peptide Deformylase Peptide deformylase 1v3yA00
1BS5A 5KOBA 5JF1A 3G5PA 1WS0A 1BSKA 3SW8P 3UWBA 1N5NA 5JF5A 1BS4A 5JEXA 5J46A 3L87A 4AZ4A 3U7NA 3UWAA 3U04A 1G27A 4E9AA 5CY7A 1LMHA 1ICJA 4AL2A 2EW6A 4NT8A 4JE7A 3FWXA 1BS8A 2AIAA 3PN6A 1BS7A 1G2AA 3O3JA 1LRUA 3PN3A 5CWYA 2W3UA 4DR8A 5CX0A 4JE8A 4EOXP 5HGWA 3U7MA 2AI8A 3G5KA 2AI9A 1DFFA 1RQCA 5CXJA 2OKLA 1V3YA 3PN2A 1XEMA 5T8ZA 5JF8A 5JEZA 1S17A 3PN4A 3SVJP 2EW7A 4E9BA 3M6RA 1BSJA 2AIEP 5JEYA 1BS6A 1DEFA 2OS0A 1SV2A 3M6PA 3E3UA 4AL3A 1RL4A 1WS1A 1VEVA 3OCAA 5CVQA 1BSZA 5E5DA 3G6NA 5JF0A 5JF6A 1ZXZA 3QU1A 5JF3A 1LM6A 3CMDA 4WXKA 2OS1A 5CWXA 3STRP 5CVPA 2EW5A 3M6OA 4WXLA 1XENA 5I2BA 5JF4A 1XEOA 1LRYA 5CVKA 1LQWA 1Q1YA 1LMEA 4JE6A 1ZY0A 2W3TA 2KMNA 5CP0A 1LM4A 1JYMA 2AI7A 2OS3A 2DEFA 5CPDA 3U7LA 3M6QA 1VEYA 1Y6HA 3U7KA 4DR9A 1ZY1A 1IX1A 1VEZA 3K6LA 3CPMA 5JF7A 1SZZA 5CY8A 1LQYA 5JF2A 3PN5A
chains in the Genus database with same CATH superfamily
1BS5A 5KOBA 5JF1A 3G5PA 1WS0A 1BSKA 3SW8P 3UWBA 1N5NA 5JF5A 1BS4A 5JEXA 5J46A 3L87A 4AZ4A 3U7NA 3UWAA 3U04A 1G27A 4E9AA 5CY7A 1LMHA 1ICJA 4AL2A 2EW6A 4NT8A 4JE7A 3FWXA 1BS8A 2AIAA 3PN6A 1BS7A 1G2AA 3O3JA 1LRUA 3PN3A 5CWYA 2W3UA 4DR8A 5CX0A 4JE8A 4EOXP 5HGWA 3U7MA 2AI8A 3G5KA 2AI9A 1DFFA 1RQCA 5CXJA 2OKLA 1V3YA 3PN2A 1XEMA 5T8ZA 5JF8A 5JEZA 1S17A 3PN4A 3SVJP 2EW7A 4E9BA 3M6RA 1BSJA 2AIEP 5JEYA 1BS6A 1DEFA 2OS0A 1SV2A 3M6PA 3E3UA 4AL3A 1RL4A 1WS1A 1VEVA 3OCAA 5CVQA 1BSZA 5E5DA 3G6NA 5JF0A 5JF6A 1ZXZA 3QU1A 5JF3A 1LM6A 3CMDA 4WXKA 2OS1A 5CWXA 3STRP 5CVPA 2EW5A 3M6OA 4WXLA 1XENA 5I2BA 5JF4A 1XEOA 1LRYA 5CVKA 1LQWA 1Q1YA 1LMEA 4JE6A 1ZY0A 2W3TA 2KMNA 5CP0A 1LM4A 1JYMA 2AI7A 2OS3A 2DEFA 5CPDA 3U7LA 3M6QA 1VEYA 1Y6HA 3U7KA 4DR9A 1ZY1A 1IX1A 1VEZA 3K6LA 3CPMA 5JF7A 1SZZA 5CY8A 1LQYA 5JF2A 3PN5A
chains in the Genus database with same CATH topology
1BS5A 5KOBA 5JF1A 3G5PA 1WS0A 1BSKA 3SW8P 3UWBA 1N5NA 5JF5A 1BS4A 5JEXA 5J46A 3L87A 4AZ4A 3U7NA 3UWAA 3U04A 1G27A 4E9AA 5CY7A 1LMHA 1ICJA 4AL2A 2EW6A 4NT8A 4JE7A 3FWXA 1BS8A 2AIAA 3PN6A 1BS7A 1G2AA 3O3JA 1LRUA 3PN3A 5CWYA 2W3UA 4DR8A 5CX0A 4JE8A 4EOXP 5HGWA 3U7MA 2AI8A 3G5KA 2AI9A 1DFFA 1RQCA 5CXJA 2OKLA 1V3YA 3PN2A 1XEMA 5T8ZA 5JF8A 5JEZA 1S17A 3PN4A 3SVJP 2EW7A 4E9BA 3M6RA 1BSJA 2AIEP 5JEYA 1BS6A 1DEFA 2OS0A 1SV2A 3M6PA 3E3UA 4AL3A 1RL4A 1WS1A 1VEVA 3OCAA 5CVQA 1BSZA 5E5DA 3G6NA 5JF0A 5JF6A 1ZXZA 3QU1A 5JF3A 1LM6A 3CMDA 4WXKA 2OS1A 5CWXA 3STRP 5CVPA 2EW5A 3M6OA 4WXLA 1XENA 5I2BA 5JF4A 1XEOA 1LRYA 5CVKA 1LQWA 1Q1YA 1LMEA 4JE6A 1ZY0A 2W3TA 2KMNA 5CP0A 1LM4A 1JYMA 2AI7A 2OS3A 2DEFA 5CPDA 3U7LA 3M6QA 1VEYA 1Y6HA 3U7KA 4DR9A 1ZY1A 1IX1A 1VEZA 3K6LA 3CPMA 5JF7A 1SZZA 5CY8A 1LQYA 5JF2A 3PN5A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1BS5 A;  5KOB A;  5JF1 A;  3G5P A;  1WS0 A;  1BSK A;  3SW8 P;  3UWB A;  1N5N A;  5JF5 A;  1BS4 A;  5JEX A;  5J46 A;  3L87 A;  4AZ4 A;  3U7N A;  3UWA A;  3U04 A;  1G27 A;  4E9A A;  5CY7 A;  1LMH A;  1ICJ A;  4AL2 A;  2EW6 A;  4NT8 A;  4JE7 A;  3FWX A;  1BS8 A;  2AIA A;  3PN6 A;  1BS7 A;  1G2A A;  3O3J A;  1LRU A;  3PN3 A;  5CWY A;  2W3U A;  4DR8 A;  5CX0 A;  4JE8 A;  4EOX P;  5HGW A;  3U7M A;  2AI8 A;  3G5K A;  2AI9 A;  1DFF A;  1RQC A;  5CXJ A;  2OKL A;  1V3Y A;  3PN2 A;  1XEM A;  5T8Z A;  5JF8 A;  5JEZ A;  1S17 A;  3PN4 A;  3SVJ P;  2EW7 A;  4E9B A;  3M6R A;  1BSJ A;  2AIE P;  5JEY A;  1BS6 A;  1DEF A;  2OS0 A;  1SV2 A;  3M6P A;  3E3U A;  4AL3 A;  1RL4 A;  1WS1 A;  1VEV A;  3OCA A;  5CVQ A;  1BSZ A;  5E5D A;  3G6N A;  5JF0 A;  5JF6 A;  1ZXZ A;  3QU1 A;  5JF3 A;  1LM6 A;  3CMD A;  4WXK A;  2OS1 A;  5CWX A;  3STR P;  5CVP A;  2EW5 A;  3M6O A;  4WXL A;  1XEN A;  5I2B A;  5JF4 A;  1XEO A;  1LRY A;  5CVK A;  1LQW A;  1Q1Y A;  1LME A;  4JE6 A;  1ZY0 A;  2W3T A;  2KMN A;  5CP0 A;  1LM4 A;  1JYM A;  2AI7 A;  2OS3 A;  2DEF A;  5CPD A;  3U7L A;  3M6Q A;  1VEY A;  1Y6H A;  3U7K A;  4DR9 A;  1ZY1 A;  1IX1 A;  1VEZ A;  3K6L A;  3CPM A;  5JF7 A;  1SZZ A;  5CY8 A;  1LQY A;  5JF2 A;  3PN5 A; 
#chains in the Genus database with same CATH topology
 1BS5 A;  5KOB A;  5JF1 A;  3G5P A;  1WS0 A;  1BSK A;  3SW8 P;  3UWB A;  1N5N A;  5JF5 A;  1BS4 A;  5JEX A;  5J46 A;  3L87 A;  4AZ4 A;  3U7N A;  3UWA A;  3U04 A;  1G27 A;  4E9A A;  5CY7 A;  1LMH A;  1ICJ A;  4AL2 A;  2EW6 A;  4NT8 A;  4JE7 A;  3FWX A;  1BS8 A;  2AIA A;  3PN6 A;  1BS7 A;  1G2A A;  3O3J A;  1LRU A;  3PN3 A;  5CWY A;  2W3U A;  4DR8 A;  5CX0 A;  4JE8 A;  4EOX P;  5HGW A;  3U7M A;  2AI8 A;  3G5K A;  2AI9 A;  1DFF A;  1RQC A;  5CXJ A;  2OKL A;  1V3Y A;  3PN2 A;  1XEM A;  5T8Z A;  5JF8 A;  5JEZ A;  1S17 A;  3PN4 A;  3SVJ P;  2EW7 A;  4E9B A;  3M6R A;  1BSJ A;  2AIE P;  5JEY A;  1BS6 A;  1DEF A;  2OS0 A;  1SV2 A;  3M6P A;  3E3U A;  4AL3 A;  1RL4 A;  1WS1 A;  1VEV A;  3OCA A;  5CVQ A;  1BSZ A;  5E5D A;  3G6N A;  5JF0 A;  5JF6 A;  1ZXZ A;  3QU1 A;  5JF3 A;  1LM6 A;  3CMD A;  4WXK A;  2OS1 A;  5CWX A;  3STR P;  5CVP A;  2EW5 A;  3M6O A;  4WXL A;  1XEN A;  5I2B A;  5JF4 A;  1XEO A;  1LRY A;  5CVK A;  1LQW A;  1Q1Y A;  1LME A;  4JE6 A;  1ZY0 A;  2W3T A;  2KMN A;  5CP0 A;  1LM4 A;  1JYM A;  2AI7 A;  2OS3 A;  2DEF A;  5CPD A;  3U7L A;  3M6Q A;  1VEY A;  1Y6H A;  3U7K A;  4DR9 A;  1ZY1 A;  1IX1 A;  1VEZ A;  3K6L A;  3CPM A;  5JF7 A;  1SZZ A;  5CY8 A;  1LQY A;  5JF2 A;  3PN5 A; 
#chains in the Genus database with same CATH homology
 1BS5 A;  5KOB A;  5JF1 A;  3G5P A;  1WS0 A;  1BSK A;  3SW8 P;  3UWB A;  1N5N A;  5JF5 A;  1BS4 A;  5JEX A;  5J46 A;  3L87 A;  4AZ4 A;  3U7N A;  3UWA A;  3U04 A;  1G27 A;  4E9A A;  5CY7 A;  1LMH A;  1ICJ A;  4AL2 A;  2EW6 A;  4NT8 A;  4JE7 A;  3FWX A;  1BS8 A;  2AIA A;  3PN6 A;  1BS7 A;  1G2A A;  3O3J A;  1LRU A;  3PN3 A;  5CWY A;  2W3U A;  4DR8 A;  5CX0 A;  4JE8 A;  4EOX P;  5HGW A;  3U7M A;  2AI8 A;  3G5K A;  2AI9 A;  1DFF A;  1RQC A;  5CXJ A;  2OKL A;  1V3Y A;  3PN2 A;  1XEM A;  5T8Z A;  5JF8 A;  5JEZ A;  1S17 A;  3PN4 A;  3SVJ P;  2EW7 A;  4E9B A;  3M6R A;  1BSJ A;  2AIE P;  5JEY A;  1BS6 A;  1DEF A;  2OS0 A;  1SV2 A;  3M6P A;  3E3U A;  4AL3 A;  1RL4 A;  1WS1 A;  1VEV A;  3OCA A;  5CVQ A;  1BSZ A;  5E5D A;  3G6N A;  5JF0 A;  5JF6 A;  1ZXZ A;  3QU1 A;  5JF3 A;  1LM6 A;  3CMD A;  4WXK A;  2OS1 A;  5CWX A;  3STR P;  5CVP A;  2EW5 A;  3M6O A;  4WXL A;  1XEN A;  5I2B A;  5JF4 A;  1XEO A;  1LRY A;  5CVK A;  1LQW A;  1Q1Y A;  1LME A;  4JE6 A;  1ZY0 A;  2W3T A;  2KMN A;  5CP0 A;  1LM4 A;  1JYM A;  2AI7 A;  2OS3 A;  2DEF A;  5CPD A;  3U7L A;  3M6Q A;  1VEY A;  1Y6H A;  3U7K A;  4DR9 A;  1ZY1 A;  1IX1 A;  1VEZ A;  3K6L A;  3CPM A;  5JF7 A;  1SZZ A;  5CY8 A;  1LQY A;  5JF2 A;  3PN5 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...