1BDVA

Arc fv10 cocrystal
Total Genus 16
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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
16
sequence length
46
structure length
46
Chain Sequence
MPQVNLRWPREVLDLVRKVAEENGRSVNSEIYQRVMESFKKEGRIG
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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 Origins of DNA-binding specificity: role of protein contacts with the DNA backbone.
pubmed doi rcsb
molecule tags Gene regulation/dna
source organism Enterobacteria phage p22
molecule keywords DNA (5'-D(*TP*AP*TP*AP*GP*TP*AP*GP*AP*GP*TP*GP*CP*TP*TP*CP*T
total genus 16
structure length 46
sequence length 46
chains with identical sequence B, C, D
ec nomenclature
pdb deposition date 1998-05-11

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF03869 Arc Arc-like DNA binding domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.1220.10 Mainly Alpha Orthogonal Bundle Arc Repressor Mutant Met repressor-like 1bdvA00
1P94A 3H87C 2K5JA 1BDVA 1BDTA 3FT7A 3VW4A 1PARA 4HV0A 1U9PA 2CAJA 2H1OE 1NLAA 2BJ1A 2CAXA 3LGHA 3GXQA 1BAZA 2CADA 1ARQA 2WVBA 2KELA 2K29A 2HZVA 1MYKA 2K9IA 3VEAA 2BJ8A 2GPEA 2WVDA 2WVEA 2BSQE 1X93A 4ME7E 1QTGA 1B28A 2JXHA 1MYLA 2JXGA 3VEBA 3FMTA 2AY0A 2K6LA 2WVCA 2BNWA 2BJ3A 2WVFA 3QOQA 1EA4A 1ARRA 2CA9A 4D8JA 2RBFA 1B01A 2BJ7A 2BJ9A 2BNZA 1IRQA 2HZAA 3OD2A 4FXEA 1MNTA 2K1OA 2JXIA 2BA3A 2CPGA 1Q5VA
chains in the Genus database with same CATH superfamily
3UR0A 3H5YA 3VW4A 4NRUA 3UPFA 2BJ1A 2WVBA 2KELA 2K29A 4LQ9A 1MYKA 1X93A 3FMTA 2AY0A 3IR7A 4AAIA 2BJ3A 1EA4A 1SH0A 2UUTA 1BDTA 2K5JA 2WK4A 1PARA 4HV0A 1NLAA 3BSNA 1SH2A 2CADA 3NAHA 2A2BA 1ARQA 2KOEA 3G5OA 2GPEA 2WVDA 2CKWA 1B28A 4LRVA 2JXHA 1OHNA 2K6LA 2Q2KA 2WVFA 1ARRA 2CA9A 2RBFA 2BJ7A 2BNZA 1IRQA 2HZAA 2JBVA 1MNTA 2K1OA 1P94A 3H87C 3FT7A 3NNEA 2CAJA 2CAXA 2HZVA 3SFGA 3VEAA 2KKEA 2BJ8A 3BSOA 2BSQE 1QTGA 2JXGA 2WVCA 3H5XA 4D8JA 1B01A 4LQ3A 2BJ9A 3NO7A 4FXEA 2JXIA 2CPGA 2AN7A 1Q5VA 1SIWA 1BDVA 2UUWA 2H1OE 1U9PA 3LGHA 3GXQA 4QPXA 1BAZA 2B43A 1OG7A 4NRTA 3SFUA 2K9IA 3QIDA 2H3AA 2WVEA 3UQSA 4ME7E 1Q16A 3VEBA 3LJPA 4O4RA 3QOQA 2BNWA 4MJWA 2ADLA 1SH3A 3NAIA 3OD2A 2BA3A 1MYLA
chains in the Genus database with same CATH topology
1P94A 3H87C 2K5JA 1BDVA 1BDTA 3FT7A 3VW4A 1PARA 4HV0A 1U9PA 2CAJA 2H1OE 1NLAA 2BJ1A 2CAXA 3LGHA 3GXQA 1BAZA 2CADA 1ARQA 2WVBA 2KELA 2K29A 2HZVA 1MYKA 2K9IA 3VEAA 2BJ8A 2GPEA 2WVDA 2WVEA 2BSQE 1X93A 4ME7E 1QTGA 1B28A 2JXHA 1MYLA 2JXGA 3VEBA 3FMTA 2AY0A 2K6LA 2WVCA 2BNWA 2BJ3A 2WVFA 3QOQA 1EA4A 1ARRA 2CA9A 4D8JA 2RBFA 1B01A 2BJ7A 2BJ9A 2BNZA 1IRQA 2HZAA 3OD2A 4FXEA 1MNTA 2K1OA 2JXIA 2BA3A 2CPGA 1Q5VA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1P94 A;  3H87 C;  2K5J A;  1BDV A;  1BDT A;  3FT7 A;  3VW4 A;  1PAR A;  4HV0 A;  1U9P A;  2CAJ A;  2H1O E;  1NLA A;  2BJ1 A;  2CAX A;  3LGH A;  3GXQ A;  1BAZ A;  2CAD A;  1ARQ A;  2WVB A;  2KEL A;  2K29 A;  2HZV A;  1MYK A;  2K9I A;  3VEA A;  2BJ8 A;  2GPE A;  2WVD A;  2WVE A;  2BSQ E;  1X93 A;  4ME7 E;  1QTG A;  1B28 A;  2JXH A;  1MYL A;  2JXG A;  3VEB A;  3FMT A;  2AY0 A;  2K6L A;  2WVC A;  2BNW A;  2BJ3 A;  2WVF A;  3QOQ A;  1EA4 A;  1ARR A;  2CA9 A;  4D8J A;  2RBF A;  1B01 A;  2BJ7 A;  2BJ9 A;  2BNZ A;  1IRQ A;  2HZA A;  3OD2 A;  4FXE A;  1MNT A;  2K1O A;  2JXI A;  2BA3 A;  2CPG A;  1Q5V A; 
#chains in the Genus database with same CATH topology
 3UR0 A;  3H5Y A;  3VW4 A;  4NRU A;  3UPF A;  2BJ1 A;  2WVB A;  2KEL A;  2K29 A;  4LQ9 A;  1MYK A;  1X93 A;  3FMT A;  2AY0 A;  3IR7 A;  4AAI A;  2BJ3 A;  1EA4 A;  1SH0 A;  2UUT A;  1BDT A;  2K5J A;  2WK4 A;  1PAR A;  4HV0 A;  1NLA A;  3BSN A;  1SH2 A;  2CAD A;  3NAH A;  2A2B A;  1ARQ A;  2KOE A;  3G5O A;  2GPE A;  2WVD A;  2CKW A;  1B28 A;  4LRV A;  2JXH A;  1OHN A;  2K6L A;  2Q2K A;  2WVF A;  1ARR A;  2CA9 A;  2RBF A;  2BJ7 A;  2BNZ A;  1IRQ A;  2HZA A;  2JBV A;  1MNT A;  2K1O A;  1P94 A;  3H87 C;  3FT7 A;  3NNE A;  2CAJ A;  2CAX A;  2HZV A;  3SFG A;  3VEA A;  2KKE A;  2BJ8 A;  3BSO A;  2BSQ E;  1QTG A;  2JXG A;  2WVC A;  3H5X A;  4D8J A;  1B01 A;  4LQ3 A;  2BJ9 A;  3NO7 A;  4FXE A;  2JXI A;  2CPG A;  2AN7 A;  1Q5V A;  1SIW A;  1BDV A;  2UUW A;  2H1O E;  1U9P A;  3LGH A;  3GXQ A;  4QPX A;  1BAZ A;  2B43 A;  1OG7 A;  4NRT A;  3SFU A;  2K9I A;  3QID A;  2H3A A;  2WVE A;  3UQS A;  4ME7 E;  1Q16 A;  3VEB A;  3LJP A;  4O4R A;  3QOQ A;  2BNW A;  4MJW A;  2ADL A;  1SH3 A;  3NAI A;  3OD2 A;  2BA3 A;  1MYL A; 
#chains in the Genus database with same CATH homology
 1P94 A;  3H87 C;  2K5J A;  1BDV A;  1BDT A;  3FT7 A;  3VW4 A;  1PAR A;  4HV0 A;  1U9P A;  2CAJ A;  2H1O E;  1NLA A;  2BJ1 A;  2CAX A;  3LGH A;  3GXQ A;  1BAZ A;  2CAD A;  1ARQ A;  2WVB A;  2KEL A;  2K29 A;  2HZV A;  1MYK A;  2K9I A;  3VEA A;  2BJ8 A;  2GPE A;  2WVD A;  2WVE A;  2BSQ E;  1X93 A;  4ME7 E;  1QTG A;  1B28 A;  2JXH A;  1MYL A;  2JXG A;  3VEB A;  3FMT A;  2AY0 A;  2K6L A;  2WVC A;  2BNW A;  2BJ3 A;  2WVF A;  3QOQ A;  1EA4 A;  1ARR A;  2CA9 A;  4D8J A;  2RBF A;  1B01 A;  2BJ7 A;  2BJ9 A;  2BNZ A;  1IRQ A;  2HZA A;  3OD2 A;  4FXE A;  1MNT A;  2K1O A;  2JXI A;  2BA3 A;  2CPG A;  1Q5V A; 
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