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
3TEHB 1PYSB 2ALYB 2RHQB 4P75A 3L4GB 4P72A 4TVAB 4P74A 2IY5B 2AKWB 1JJCB 1B7YB 3PCOB 2CXIA 1B70B 4P71A 2RHSB 3HFZB 1EIYB 2AMCB 4P73A
chains in the Genus database with same CATH superfamily
2DULA 5M73B 3AXSA 4DDUA 3TEHB 1PYSB 3KTVB 4IOHA 1ND9A 3DLUA 1KVNA 2ALYB 2YTZA 2V3CA 2RHQB 4XCOA 4P75A 3L4GB 3NDBA 4P72A 3USHA 3AXTA 4P74A 4TVAB 2IY5B 2AKWB 1JJCB 1LNGA 1B7YB 2EJUA 3PCOB 4P3EB 2CXIA 2LQ3A 2EJTA 3KTWA 1B70B 4P71A 1MFQB 1KVVA 2RHSB 4DDVA 3HFZB 1EIYB 1JIDA 2AMCB 2HG7A 1L9AA 4DDTA 4P73A 3DLVA 4DDWA
chains in the Genus database with same CATH topology
2DULA 3AXSA 4DDUA 3TEHB 1PYSB 4IOHA 2ALYB 2YTZA 2RHQB 4P75A 3L4GB 4P72A 3USHA 3AXTA 4P74A 4TVAB 2IY5B 2AKWB 1JJCB 1B7YB 2EJUA 3PCOB 2CXIA 2LQ3A 2EJTA 1B70B 4P71A 2RHSB 4DDVA 3HFZB 1EIYB 2AMCB 4DDTA 4P73A 4DDWA
chains in the Genus database with same CATH homology


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