4QJNA

Crystal structure of apo nucleoid associated protein, sav1473
Total Genus 20

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
20
sequence length
90
structure length
90
Chain Sequence
MNKTDLINAVAEQADLTKKEAGSAVDAVFESIQNSLAKGEKVQLIGFGNFEVRERAARKGRNPQTGKEIDIPASKVPAFKAGKALKDAVK

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
EMPTYS2 (48-55)S1 (42-44)TIV1 (44-47)S3 (58-61)TIV3 (62-65)TIV4 (63-66)AH1 (3-14)AH2 (18-38)S4 (68-71)AH3 (83-89)S5 (74-81)Updating...
connected with : NaN
publication title beta-Arm flexibility of HU from Staphylococcus aureus dictates the DNA-binding and recognition mechanism
pubmed doi rcsb
molecule keywords DNA-binding protein HU
molecule tags Dna binding protein
source organism Staphylococcus aureus
total genus 20
structure length 90
sequence length 90
chains with identical sequence B, C, D
ec nomenclature
pdb deposition date 2014-06-04

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00216 Bac_DNA_binding Bacterial DNA-binding protein
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
4.10.520.10 Few Secondary Structures Irregular HU Protein; Chain A IHF-like DNA-binding proteins 4qjnA00
4YFTA 4YEXA 1IHFA 4PT4A 4YEWA 1OWFB 1OWGB 1P71A 5EKAA 2IIEA 2NP2A 2O97A 2IIFA 3RHIA 1RIYA 1WTUA 4DKYA 4FMRA 4YEYA 1OUZB 4YF0A 1P78A 1EXEA 2HT0B 5L8ZA 2NDPA 4YFTC 1HUEA 4YFHA 1OWFA 1OWGA 1B8ZA 1HUUA 1IHFB 4N1VA 1P51A 4YEWC 1MULA 4QJUA 2O97B 1OUZA 4P3VA 4QJNA 2HT0A 5FBMA
chains in the Genus database with same CATH superfamily
4YFTA 4YEXA 1IHFA 4PT4A 4YEWA 1OWFB 1OWGB 1P71A 5EKAA 2IIEA 2NP2A 2O97A 2IIFA 3RHIA 1RIYA 1WTUA 4DKYA 4FMRA 4YEYA 1OUZB 4YF0A 1P78A 1EXEA 2HT0B 5L8ZA 2NDPA 4YFTC 1HUEA 4YFHA 1OWFA 1OWGA 1B8ZA 1HUUA 1IHFB 4N1VA 1P51A 4YEWC 1MULA 4QJUA 2O97B 1OUZA 4P3VA 4QJNA 2HT0A 5FBMA
chains in the Genus database with same CATH topology
4YFTA 4YEXA 1IHFA 4PT4A 4YEWA 1OWFB 1OWGB 1P71A 5EKAA 2IIEA 2NP2A 2O97A 2IIFA 3RHIA 1RIYA 1WTUA 4DKYA 4FMRA 4YEYA 1OUZB 4YF0A 1P78A 1EXEA 2HT0B 5L8ZA 2NDPA 4YFTC 1HUEA 4YFHA 1OWFA 1OWGA 1B8ZA 1HUUA 1IHFB 4N1VA 1P51A 4YEWC 1MULA 4QJUA 2O97B 1OUZA 4P3VA 4QJNA 2HT0A 5FBMA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4YFT A;  4YEX A;  1IHF A;  4PT4 A;  4YEW A;  1OWF B;  1OWG B;  1P71 A;  5EKA A;  2IIE A;  2NP2 A;  2O97 A;  2IIF A;  3RHI A;  1RIY A;  1WTU A;  4DKY A;  4FMR A;  4YEY A;  1OUZ B;  4YF0 A;  1P78 A;  1EXE A;  2HT0 B;  5L8Z A;  2NDP A;  4YFT C;  1HUE A;  4YFH A;  1OWF A;  1OWG A;  1B8Z A;  1HUU A;  1IHF B;  4N1V A;  1P51 A;  4YEW C;  1MUL A;  4QJU A;  2O97 B;  1OUZ A;  4P3V A;  4QJN A;  2HT0 A;  5FBM A; 
#chains in the Genus database with same CATH topology
 4YFT A;  4YEX A;  1IHF A;  4PT4 A;  4YEW A;  1OWF B;  1OWG B;  1P71 A;  5EKA A;  2IIE A;  2NP2 A;  2O97 A;  2IIF A;  3RHI A;  1RIY A;  1WTU A;  4DKY A;  4FMR A;  4YEY A;  1OUZ B;  4YF0 A;  1P78 A;  1EXE A;  2HT0 B;  5L8Z A;  2NDP A;  4YFT C;  1HUE A;  4YFH A;  1OWF A;  1OWG A;  1B8Z A;  1HUU A;  1IHF B;  4N1V A;  1P51 A;  4YEW C;  1MUL A;  4QJU A;  2O97 B;  1OUZ A;  4P3V A;  4QJN A;  2HT0 A;  5FBM A; 
#chains in the Genus database with same CATH homology
 4YFT A;  4YEX A;  1IHF A;  4PT4 A;  4YEW A;  1OWF B;  1OWG B;  1P71 A;  5EKA A;  2IIE A;  2NP2 A;  2O97 A;  2IIF A;  3RHI A;  1RIY A;  1WTU A;  4DKY A;  4FMR A;  4YEY A;  1OUZ B;  4YF0 A;  1P78 A;  1EXE A;  2HT0 B;  5L8Z A;  2NDP A;  4YFT C;  1HUE A;  4YFH A;  1OWF A;  1OWG A;  1B8Z A;  1HUU A;  1IHF B;  4N1V A;  1P51 A;  4YEW C;  1MUL A;  4QJU A;  2O97 B;  1OUZ A;  4P3V A;  4QJN A;  2HT0 A;  5FBM 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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