2CV8A

Crystal structure of trna-intron endonuclease from sulfolobus tokodaii
Total Genus 40
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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
40
sequence length
180
structure length
160
Chain Sequence
MIGELVKDKILIKNIEDARLIYKMGYYGKPIGSELILSLIEGVYLVKKGKLEIVSNGERLDFERLYQIGVTQIPRFRILYSVYEDLREKGYVVRSGIKYGADFAVYTIGPPYLVIALDENSQISSNEILGFGRVSKELILGIVNLTNGKIRYIMFKWLKM
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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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molecule tags Hydrolase
molecule keywords tRNA-splicing endonuclease
publication title Crystal structure of tRNA-intron endonuclease from Sulfolobus tokodaii
rcsb
source organism Sulfolobus tokodaii
total genus 40
structure length 160
sequence length 180
chains with identical sequence B
ec nomenclature ec 4.6.1.16: tRNA-intron lyase.
pdb deposition date 2005-06-01

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01974 tRNA_int_endo tRNA intron endonuclease, catalytic C-terminal domain
A 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 2cv8A01
3.40.1350.10 Alpha Beta 3-Layer(aba) Sandwich Trna Endonuclease; Chain: A, domain 1 Trna Endonuclease; Chain: A, domain 1 2cv8A02
3P1ZA 2OKFA 4QBLA 1GEFA 4FZ2A 4TKKA 2WJ0A 1ZP7A 4TKDA 2EO0A 1OB9A 4QBNA 1XMXA 4QBOA 1A79A 3FOVA 3IEYA 1RZNA 2WCWA 1T0FA 3P1YA 1F1ZA 2WIWA 2INBA 1R0VA 5FDKA 3AJVB 1Y1OA 2ZYZB 1OB8A 2GW6A 3DNXA 1HH1A 2FCOA 2CV8A 2OSTA 2GJWA 3P1ZB 1Y88A 2WIZA 1RLVA 2VLDA 2WCZA 3AJVA 2ZYZA 1IPIA 1R11A
chains in the Genus database with same CATH superfamily
3P1ZA 2OKFA 4LQEA 4DAVA 1GEFA 4TKKA 2VS1A 1OB9A 1XMXA 3K0SA 1FW6A 1A79A 1RZNA 1T0FA 3P1YA 1F1ZA 3THWB 2INBA 1Y1OA 1WB9A 3THXB 2O8FB 2CV8A 2IXSA 1EWQA 3ZLJA 1RLVA 4DAPA 3IF0X 2WCZA 2O8FA 2O8DA 4QBLA 1OH6A 2O8CB 2WJ0A 2O8EB 2WTUA 2EO0A 1WBBA 2FZ4A 3AJVB 1OB8A 4G6UA 2JJQA 2DBSA 2FLCA 3BT7A 3THWA 1OH5A 3THXA 2W8MA 3IEYB 4FZ2A 2O8BB 4TKDA 4ZQUA 1OH8A 2FKHB 3FOVA 3IEYA 2WIWA 2O8CA 1R0VA 2O8EA 5FDKA 2GW6A 2ZYZB 3DNXA 2FCOA 2OSTA 2GJWA 4EV1A 1Y88A 1NNEA 1W7AA 3AJVA 1YNMA 1UWVA 1R11A 4E6ZA 1E3MA 1NG9A 2BH2A 3THYB 1OH7A 4DA2A 1ZP7A 4QBNA 4QBOA 3THYA 2WCWA 2O8BA 4G6VA 2O8DB 2Z0RA 1HH1A 2FWRA 3P1ZB 2FKCA 2WIZA 2FL3A 2VLDA 1WBDA 2CZRA 2ZYZA 1IPIA
chains in the Genus database with same CATH topology
3P1ZA 2OKFA 2W8MA 4LQEA 4QBLA 4DAVA 2BH2A 1GEFA 3IEYB 4FZ2A 4TKKA 2WJ0A 2VS1A 1ZP7A 4TKDA 2EO0A 4ZQUA 4DA2A 1OB9A 4QBNA 1XMXA 4QBOA 2FKHB 1A79A 3FOVA 3IEYA 1RZNA 2WCWA 1T0FA 3P1YA 1F1ZA 2WIWA 2INBA 1R0VA 5FDKA 3AJVB 1Y1OA 2ZYZB 1OB8A 2GW6A 3DNXA 4G6VA 4G6UA 2Z0RA 2JJQA 1HH1A 2FCOA 2CV8A 2OSTA 2GJWA 3P1ZB 2FKCA 2DBSA 4EV1A 2IXSA 2FLCA 1Y88A 2WIZA 2FL3A 3BT7A 1RLVA 4DAPA 2VLDA 2CZRA 3IF0X 2WCZA 3AJVA 1YNMA 2ZYZA 1UWVA 1IPIA 1R11A 4E6ZA
chains in the Genus database with same CATH homology


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