3P1ZB

Crystal structure of the aperopyrum pernix rna splicing endonuclease
Total Genus 46
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
46
sequence length
180
structure length
180
Chain Sequence
PIKASGVLIGDSVLVTDVEQARSLYSCGYYGQPLDVEKPRGADFEGPLRLSLIESLYLAEKGVLEVAKPDGSSVGVEDLRTAVRGNPRFSMLYNIYRDLRERGFVVRSGLKFGSDFAVYRLGPGIDHAPFIVHAYSPEDNIDPVEIVRAGRLSHSVRKKFVFAVTRGGDVSYLMIDWFRP
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 Putative uncharacterized protein
publication title Cleavage of intron from the standard or non-standard position of the precursor tRNA by the splicing endonuclease of Aeropyrum pernix, a hyper-thermophilic Crenarchaeon, involves a novel RNA recognition site in the Crenarchaea specific loop
pubmed doi rcsb
source organism Aeropyrum pernix
total genus 46
structure length 180
sequence length 180
chains with identical sequence D, F, H, J, L
ec nomenclature ec 4.6.1.16: tRNA-intron lyase.
pdb deposition date 2010-10-01

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
B PF01974 tRNA_int_endo tRNA intron endonuclease, catalytic C-terminal domain
B PF02778 tRNA_int_endo_N tRNA intron endonuclease, N-terminal domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1170.20 Alpha Beta 3-Layer(aba) Sandwich MutS, DNA mismatch repair protein, domain I tRNA intron endonuclease, N-terminal domain 3p1zB01
3.40.1350.10 Alpha Beta 3-Layer(aba) Sandwich Trna Endonuclease; Chain: A, domain 1 Trna Endonuclease; Chain: A, domain 1 3p1zB02
5FDKA 1T0FA 2WJ0A 4QBLA 3P1ZB 3AJVB 3AJVA 3P1ZA 4QBOA 3P1YA 1OB9A 1ZP7A 2WCZA 1OB8A 1RLVA 1F1ZA 2EO0A 3DNXA 2WCWA 2INBA 4FZ2A 2CV8A 1Y1OA 2FCOA 1GEFA 2OSTA 4QBNA 2ZYZB 2GJWA 2GW6A 2OKFA 1R11A 2ZYZA 3FOVA 2VLDA 1A79A 4TKKA 2WIZA 4TKDA 2WIWA 1Y88A 3IEYA 1HH1A 1R0VA 1RZNA 1XMXA 1IPIA
chains in the Genus database with same CATH superfamily
3THWA 3AJVA 2FLCA 1ZP7A 2O8EA 4DAPA 1OH6A 2BH2A 2WCWA 4FZ2A 2CV8A 1GEFA 4DA2A 2OSTA 3THYB 2ZYZB 2FL3A 1R11A 1E3MA 1A79A 2O8BA 3IEYA 1HH1A 2O8FB 1XMXA 2WCZA 1IPIA 2WJ0A 4QBLA 1WBBA 1OH8A 3P1ZB 1NG9A 4QBOA 3P1YA 1OB9A 4EV1A 4G6UA 1OB8A 1F1ZA 2O8CB 3K0SA 3DNXA 1WB9A 2INBA 1UWVA 3THXB 3THYA 2OKFA 2ZYZA 1NNEA 3FOVA 2JJQA 3ZLJA 2WIWA 2FWRA 4LQEA 1R0VA 1RZNA 2O8FA 2FZ4A 1Y1OA 5FDKA 1T0FA 1WBDA 3P1ZA 2W8MA 2Z0RA 4ZQUA 2DBSA 2O8CA 2EO0A 1YNMA 2FCOA 4DAVA 3THXA 2CZRA 3IF0X 4QBNA 2VLDA 4TKKA 2WIZA 2FKCA 1EWQA 4G6VA 1Y88A 4TKDA 1OH7A 1FW6A 2O8DB 2VS1A 2IXSA 3THWB 3AJVB 2O8EB 1RLVA 3BT7A 2WTUA 1OH5A 2GJWA 2GW6A 4E6ZA 2O8BB 2FKHB 1W7AA 3IEYB 2O8DA
chains in the Genus database with same CATH topology
2VS1A 5FDKA 1T0FA 2WJ0A 2IXSA 4QBLA 3P1ZB 3AJVB 3AJVA 3P1ZA 2W8MA 3P1YA 4QBOA 1OB9A 2FLCA 1ZP7A 4EV1A 4G6UA 2WCZA 2Z0RA 4DAPA 1OB8A 4ZQUA 1RLVA 1F1ZA 2DBSA 3BT7A 2EO0A 2BH2A 3DNXA 2WCWA 1YNMA 2INBA 4FZ2A 2CV8A 1Y1OA 2FCOA 1UWVA 1GEFA 4DA2A 4DAVA 2CZRA 3IF0X 2OSTA 4QBNA 2ZYZB 2GJWA 2GW6A 2OKFA 1R11A 2ZYZA 3FOVA 4E6ZA 2JJQA 2FL3A 2VLDA 1A79A 4TKKA 2FKHB 2WIZA 2FKCA 4G6VA 4TKDA 1Y88A 3IEYB 3IEYA 2WIWA 4LQEA 1HH1A 1R0VA 1RZNA 1XMXA 1IPIA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 5FDK A;  1T0F A;  2WJ0 A;  4QBL A;  3P1Z B;  3AJV B;  3AJV A;  3P1Z A;  4QBO A;  3P1Y A;  1OB9 A;  1ZP7 A;  2WCZ A;  1OB8 A;  1RLV A;  1F1Z A;  2EO0 A;  3DNX A;  2WCW A;  2INB A;  4FZ2 A;  2CV8 A;  1Y1O A;  2FCO A;  1GEF A;  2OST A;  4QBN A;  2ZYZ B;  2GJW A;  2GW6 A;  2OKF A;  1R11 A;  2ZYZ A;  3FOV A;  2VLD A;  1A79 A;  4TKK A;  2WIZ A;  4TKD A;  2WIW A;  1Y88 A;  3IEY A;  1HH1 A;  1R0V A;  1RZN A;  1XMX A;  1IPI A; 
#chains in the Genus database with same CATH topology
 3THW A;  3AJV A;  2FLC A;  1ZP7 A;  2O8E A;  4DAP A;  1OH6 A;  2BH2 A;  2WCW A;  4FZ2 A;  2CV8 A;  1GEF A;  4DA2 A;  2OST A;  3THY B;  2ZYZ B;  2FL3 A;  1R11 A;  1E3M A;  1A79 A;  2O8B A;  3IEY A;  1HH1 A;  2O8F B;  1XMX A;  2WCZ A;  1IPI A;  2WJ0 A;  4QBL A;  1WBB A;  1OH8 A;  3P1Z B;  1NG9 A;  4QBO A;  3P1Y A;  1OB9 A;  4EV1 A;  4G6U A;  1OB8 A;  1F1Z A;  2O8C B;  3K0S A;  3DNX A;  1WB9 A;  2INB A;  1UWV A;  3THX B;  3THY A;  2OKF A;  2ZYZ A;  1NNE A;  3FOV A;  2JJQ A;  3ZLJ A;  2WIW A;  2FWR A;  4LQE A;  1R0V A;  1RZN A;  2O8F A;  2FZ4 A;  1Y1O A;  5FDK A;  1T0F A;  1WBD A;  3P1Z A;  2W8M A;  2Z0R A;  4ZQU A;  2DBS A;  2O8C A;  2EO0 A;  1YNM A;  2FCO A;  4DAV A;  3THX A;  2CZR A;  3IF0 X;  4QBN A;  2VLD A;  4TKK A;  2WIZ A;  2FKC A;  1EWQ A;  4G6V A;  1Y88 A;  4TKD A;  1OH7 A;  1FW6 A;  2O8D B;  2VS1 A;  2IXS A;  3THW B;  3AJV B;  2O8E B;  1RLV A;  3BT7 A;  2WTU A;  1OH5 A;  2GJW A;  2GW6 A;  4E6Z A;  2O8B B;  2FKH B;  1W7A A;  3IEY B;  2O8D A; 
#chains in the Genus database with same CATH homology
 2VS1 A;  5FDK A;  1T0F A;  2WJ0 A;  2IXS A;  4QBL A;  3P1Z B;  3AJV B;  3AJV A;  3P1Z A;  2W8M A;  3P1Y A;  4QBO A;  1OB9 A;  2FLC A;  1ZP7 A;  4EV1 A;  4G6U A;  2WCZ A;  2Z0R A;  4DAP A;  1OB8 A;  4ZQU A;  1RLV A;  1F1Z A;  2DBS A;  3BT7 A;  2EO0 A;  2BH2 A;  3DNX A;  2WCW A;  1YNM A;  2INB A;  4FZ2 A;  2CV8 A;  1Y1O A;  2FCO A;  1UWV A;  1GEF A;  4DA2 A;  4DAV A;  2CZR A;  3IF0 X;  2OST A;  4QBN A;  2ZYZ B;  2GJW A;  2GW6 A;  2OKF A;  1R11 A;  2ZYZ A;  3FOV A;  4E6Z A;  2JJQ A;  2FL3 A;  2VLD A;  1A79 A;  4TKK A;  2FKH B;  2WIZ A;  2FKC A;  4G6V A;  4TKD A;  1Y88 A;  3IEY B;  3IEY A;  2WIW A;  4LQE A;  1HH1 A;  1R0V A;  1RZN A;  1XMX A;  1IPI 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...