4QBLA

Vrr_nuc domain protein
Total Genus 33

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
33
sequence length
140
structure length
122
Chain Sequence
LKGLTEDEVQTVVMNWSKRQKFKGRPLFDYIHHSPEAAKFKRMGVKAGYPDLIIDIARGAYHGLRIEIKKDGNSYATPAQKERIEMLAKEGYCAVVAKGIDNVISVIQQYIKLGDFDGVSQL

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.


  Genus data interpretation
Chord Diagram
AH1 (10-16)TIV1 (25-28)3H1 (17-23)S1 (25-26)EMPTYS2 (29-30)AH2 (58-64)TII1 (68-71)S4 (74-76)TII'1 (80-83)S5 (86-91)AH3 (100-106)TI1 (93-96)3H2 (31-34)S6 (115-120)3H3 (107-112)S3 (35-37)Updating...
connected with : NaN
molecule tags Hydrolase
source organism Psychrobacter sp.
publication title FAN1 activity on asymmetric repair intermediates is mediated by an atypical monomeric virus-type replication-repair nuclease domain.
pubmed doi rcsb
molecule keywords VRR-NUC
total genus 33
structure length 122
sequence length 140
chains with identical sequence B, C, D, E, F
ec nomenclature
pdb deposition date 2014-05-08

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF08774 VRR_NUC VRR-NUC domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1350.10 Alpha Beta 3-Layer(aba) Sandwich Trna Endonuclease; Chain: A, domain 1 Trna Endonuclease; Chain: A, domain 1 4qblA00
1R0VA 2ZYZA 3P1ZA 3FOVA 2EO0A 2WCZA 4QBOA 4TKKA 1HH1A 1Y88A 2GJWA 4QBNA 2OKFA 3AJVB 1RLVA 1ZP7A 2WJ0A 2CV8A 1T0FA 2ZYZB 3P1ZB 2WIWA 3IEYA 2GW6A 2INBA 2VLDA 4TKDA 1RZNA 1OB9A 3P1YA 3DNXA 1IPIA 1Y1OA 2FCOA 1XMXA 2WCWA 1GEFA 4QBLA 3AJVA 5FDKA 1R11A 2OSTA 1OB8A 1A79A 2WIZA 1F1ZA
chains in the Genus database with same CATH superfamily
1R0VA 2ZYZA 3P1ZA 2JJQA 3FOVA 2FL3A 4LQEA 2EO0A 2WCZA 4QBOA 4TKKA 4EV1A 1HH1A 1Y88A 2GJWA 4QBNA 2OKFA 3AJVB 1RLVA 1ZP7A 2FKCA 4DA2A 2WJ0A 2CV8A 1T0FA 2W8MA 2ZYZB 3P1ZB 2WIWA 3IEYA 4DAVA 2GW6A 2INBA 2VLDA 4TKDA 1RZNA 1OB9A 3P1YA 2Z0RA 2FLCA 3DNXA 1UWVA 1IPIA 1Y1OA 4DAPA 2WIZA 2FCOA 1XMXA 2DBSA 2IXSA 2WCWA 4ZQUA 2FKHB 1GEFA 3IEYB 4QBLA 2VS1A 3AJVA 4E6ZA 5FDKA 1R11A 2OSTA 1OB8A 3IF0X 1YNMA 2CZRA 1A79A 4G6UA 2BH2A 4G6VA 3BT7A 1F1ZA
chains in the Genus database with same CATH topology
1R0VA 2ZYZA 3P1ZA 2JJQA 3FOVA 2FL3A 4LQEA 2EO0A 2WCZA 4QBOA 4TKKA 4EV1A 1HH1A 1Y88A 2GJWA 4QBNA 2OKFA 3AJVB 1RLVA 1ZP7A 2FKCA 4DA2A 2WJ0A 2CV8A 1T0FA 2W8MA 2ZYZB 3P1ZB 2WIWA 3IEYA 4DAVA 2GW6A 2INBA 2VLDA 4TKDA 1RZNA 1OB9A 3P1YA 2Z0RA 2FLCA 3DNXA 1UWVA 1IPIA 1Y1OA 4DAPA 2WIZA 2FCOA 1XMXA 2DBSA 2IXSA 2WCWA 4ZQUA 2FKHB 1GEFA 3IEYB 4QBLA 2VS1A 3AJVA 4E6ZA 5FDKA 1R11A 2OSTA 1OB8A 3IF0X 1YNMA 2CZRA 1A79A 4G6UA 2BH2A 4G6VA 3BT7A 1F1ZA
chains in the Genus database with same CATH homology

  
#chains in the Genus database with same CATH superfamily
 1R0V A;  2ZYZ A;  3P1Z A;  3FOV A;  2EO0 A;  2WCZ A;  4QBO A;  4TKK A;  1HH1 A;  1Y88 A;  2GJW A;  4QBN A;  2OKF A;  3AJV B;  1RLV A;  1ZP7 A;  2WJ0 A;  2CV8 A;  1T0F A;  2ZYZ B;  3P1Z B;  2WIW A;  3IEY A;  2GW6 A;  2INB A;  2VLD A;  4TKD A;  1RZN A;  1OB9 A;  3P1Y A;  3DNX A;  1IPI A;  1Y1O A;  2FCO A;  1XMX A;  2WCW A;  1GEF A;  4QBL A;  3AJV A;  5FDK A;  1R11 A;  2OST A;  1OB8 A;  1A79 A;  2WIZ A;  1F1Z A; 
#chains in the Genus database with same CATH topology
 1R0V A;  2ZYZ A;  3P1Z A;  2JJQ A;  3FOV A;  2FL3 A;  4LQE A;  2EO0 A;  2WCZ A;  4QBO A;  4TKK A;  4EV1 A;  1HH1 A;  1Y88 A;  2GJW A;  4QBN A;  2OKF A;  3AJV B;  1RLV A;  1ZP7 A;  2FKC A;  4DA2 A;  2WJ0 A;  2CV8 A;  1T0F A;  2W8M A;  2ZYZ B;  3P1Z B;  2WIW A;  3IEY A;  4DAV A;  2GW6 A;  2INB A;  2VLD A;  4TKD A;  1RZN A;  1OB9 A;  3P1Y A;  2Z0R A;  2FLC A;  3DNX A;  1UWV A;  1IPI A;  1Y1O A;  4DAP A;  2WIZ A;  2FCO A;  1XMX A;  2DBS A;  2IXS A;  2WCW A;  4ZQU A;  2FKH B;  1GEF A;  3IEY B;  4QBL A;  2VS1 A;  3AJV A;  4E6Z A;  5FDK A;  1R11 A;  2OST A;  1OB8 A;  3IF0 X;  1YNM A;  2CZR A;  1A79 A;  4G6U A;  2BH2 A;  4G6V A;  3BT7 A;  1F1Z A; 
#chains in the Genus database with same CATH homology
 1R0V A;  2ZYZ A;  3P1Z A;  2JJQ A;  3FOV A;  2FL3 A;  4LQE A;  2EO0 A;  2WCZ A;  4QBO A;  4TKK A;  4EV1 A;  1HH1 A;  1Y88 A;  2GJW A;  4QBN A;  2OKF A;  3AJV B;  1RLV A;  1ZP7 A;  2FKC A;  4DA2 A;  2WJ0 A;  2CV8 A;  1T0F A;  2W8M A;  2ZYZ B;  3P1Z B;  2WIW A;  3IEY A;  4DAV A;  2GW6 A;  2INB A;  2VLD A;  4TKD A;  1RZN A;  1OB9 A;  3P1Y A;  2Z0R A;  2FLC A;  3DNX A;  1UWV A;  1IPI A;  1Y1O A;  4DAP A;  2WIZ A;  2FCO A;  1XMX A;  2DBS A;  2IXS A;  2WCW A;  4ZQU A;  2FKH B;  1GEF A;  3IEY B;  4QBL A;  2VS1 A;  3AJV A;  4E6Z A;  5FDK A;  1R11 A;  2OST A;  1OB8 A;  3IF0 X;  1YNM A;  2CZR A;  1A79 A;  4G6U A;  2BH2 A;  4G6V A;  3BT7 A;  1F1Z 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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