2CXIA

Crystal structure of an n-terminal fragment of the phenylalanyl-trna synthetase beta-subunit from pyrococcus horikoshii
Total Genus 105
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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
105
sequence length
347
structure length
347
Chain Sequence
PKFDVSKSDLERLIGRSFSIEEWEDLVLYAKCELDDVWEENGKVYFKLDSKDTNRPDLWSAEGVARQIKWALGIEKGLPKYEVKKSNVTVYVDEKLKDIRPYGVYAIVEGLRLDEDSLSQMIQLQEKIALTFGRRRREVAIGIFDFDKIKPPIYYKAAEKTEKFAPLGYKEEMTLEEILEKHEKGREYGHLIKDKQFYPLLIDSEGNVLSMPPIINSEFTGRVTTDTKNVFIDVTGWKLEKVMLALNVMVTALAERGGKIRSVRVVYKDFEIETPDLTPKEFEVELDYIRKLSGLELNDGEIKELLEKMMYEVEISRGRAKLKYPAFRDDIMHARDILEDVLIAYGY
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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 Ligase
molecule keywords Phenylalanyl-tRNA synthetase beta chain
publication title Structural and mutational studies of the amino acid-editing domain from archaeal/eukaryal phenylalanyl-tRNA synthetase
pubmed doi rcsb
source organism Pyrococcus horikoshii
total genus 105
structure length 347
sequence length 347
chains with identical sequence B, C
ec nomenclature ec 6.1.1.20: Phenylalanine--tRNA ligase.
pdb deposition date 2005-06-29

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF03483 B3_4 B3/4 domain
A PF03484 B5 tRNA synthetase B5 domain
A PF18262 PhetRS_B1 Phe-tRNA synthetase beta subunit B1 domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.56.10 Alpha Beta 2-Layer Sandwich Phenylalanyl-tRNA Synthetase; Chain B, domain 1 Phenylalanyl-tRNA Synthetase; Chain B, domain 1 2cxiA01
3.30.56.10 Alpha Beta 2-Layer Sandwich Phenylalanyl-tRNA Synthetase; Chain B, domain 1 Phenylalanyl-tRNA Synthetase; Chain B, domain 1 2cxiA03
3.50.40.10 Alpha Beta 3-Layer(bba) Sandwich Phenylalanyl-tRNA Synthetase; Chain B, domain 3 Phenylalanyl-trna Synthetase, Chain B, domain 3 2cxiA02
4P74A 2RHQB 2IY5B 4P73A 3TEHB 4P72A 2CXIA 2AKWB 1JJCB 4P71A 4P75A 2RHSB 3PCOB 1PYSB 3HFZB 2ALYB 1B70B 3L4GB 1B7YB 1EIYB 2AMCB 4TVAB
chains in the Genus database with same CATH superfamily
2EJTA 4P74A 2HG7A 2RHQB 2IY5B 4P73A 4IOHA 2LQ3A 1L9AA 3NDBA 4DDWA 1KVVA 3TEHB 3AXTA 1KVNA 4P72A 1JIDA 4P3EB 3USHA 4DDVA 4DDUA 2CXIA 1MFQB 5M73B 2AKWB 3KTWA 1JJCB 4P71A 4P75A 3AXSA 2RHSB 2EJUA 3DLUA 3PCOB 2DULA 1PYSB 3HFZB 2YTZA 4XCOA 2ALYB 1B70B 3L4GB 1B7YB 1ND9A 3DLVA 3KTVB 1EIYB 2AMCB 4TVAB 2V3CA 4DDTA 1LNGA
chains in the Genus database with same CATH topology
2EJTA 4P74A 2RHQB 2IY5B 4P73A 4IOHA 2LQ3A 4DDWA 3TEHB 3AXTA 4P72A 3USHA 4DDVA 4DDUA 2CXIA 2AKWB 1JJCB 4P71A 4P75A 3AXSA 2RHSB 2EJUA 3PCOB 2DULA 1PYSB 3HFZB 2YTZA 2ALYB 1B70B 3L4GB 1B7YB 1EIYB 2AMCB 4TVAB 4DDTA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4P74 A;  2RHQ B;  2IY5 B;  4P73 A;  3TEH B;  4P72 A;  2CXI A;  2AKW B;  1JJC B;  4P71 A;  4P75 A;  2RHS B;  3PCO B;  1PYS B;  3HFZ B;  2ALY B;  1B70 B;  3L4G B;  1B7Y B;  1EIY B;  2AMC B;  4TVA B; 
#chains in the Genus database with same CATH topology
 2EJT A;  4P74 A;  2HG7 A;  2RHQ B;  2IY5 B;  4P73 A;  4IOH A;  2LQ3 A;  1L9A A;  3NDB A;  4DDW A;  1KVV A;  3TEH B;  3AXT A;  1KVN A;  4P72 A;  1JID A;  4P3E B;  3USH A;  4DDV A;  4DDU A;  2CXI A;  1MFQ B;  5M73 B;  2AKW B;  3KTW A;  1JJC B;  4P71 A;  4P75 A;  3AXS A;  2RHS B;  2EJU A;  3DLU A;  3PCO B;  2DUL A;  1PYS B;  3HFZ B;  2YTZ A;  4XCO A;  2ALY B;  1B70 B;  3L4G B;  1B7Y B;  1ND9 A;  3DLV A;  3KTV B;  1EIY B;  2AMC B;  4TVA B;  2V3C A;  4DDT A;  1LNG A; 
#chains in the Genus database with same CATH homology
 2EJT A;  4P74 A;  2RHQ B;  2IY5 B;  4P73 A;  4IOH A;  2LQ3 A;  4DDW A;  3TEH B;  3AXT A;  4P72 A;  3USH A;  4DDV A;  4DDU A;  2CXI A;  2AKW B;  1JJC B;  4P71 A;  4P75 A;  3AXS A;  2RHS B;  2EJU A;  3PCO B;  2DUL A;  1PYS B;  3HFZ B;  2YTZ A;  2ALY B;  1B70 B;  3L4G B;  1B7Y B;  1EIY B;  2AMC B;  4TVA B;  4DDT 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)

 
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#similar chains, but unknotted
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