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


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