CATH Domain: 2d5bA01 XML data for domain: 2d5bA01

Molscript image for 2d5bA01
2d5bA01
PDB coordinates for domain 2d5bA01

PDB 2d5b, Chain A, Domain 1

CATH CodeLevel DescriptionLinks
3 Alpha Beta
3.40 3-Layer(aba) Sandwich
3.40.50 Rossmann fold
3.40.50.620 Tyrosyl-Transfer RNA Synthetase , subunit E, domain 1 Gene3D
3.40.50.620.14
3.40.50.620.14.1
3.40.50.620.14.1.1
3.40.50.620.14.1.1.1
3.40.50.620.14.1.1.1.1

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Segment boundaries for domain 2d5bA01

Chopping figure for domain 2d5bA01
DomainStart PDB ResidueStop PDB Residue
2d5bA01 1 115
2d5bA01 227 336
2d5bA02 116 226
2d5bA03 337 500

Structural Neighbourhood (6 entries)

There are 6 matching structural neighberhood comparisons for CATH ID 3.40.50.620.14.1.1.1.1 (SIMAX score < 5)

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Displaying entries 1 to 6 (page 1 of 1)
Match Depth Match SSAP score Match Keywords Match Superfamily Length Sequence Id Overlap RMSD SIMAX
1rqgA01 82.46 Aminoacyl-tRNA biosynthesisSelenoamino acid metabolismPyrococcus abyssiMethionyl-tRNA synthetaseMethionyl-tRNA synthetase [EC:6.1.1.10] 3.40.50.620 182 27 71 2.81 3.95
3h99A01 81.55 Aminoacyl-tRNA biosynthesisSelenoamino acid metabolismMembraneMethionyl-tRNA synthetaseMethionyl-tRNA synthetase [EC:6.1.1.10] 3.40.50.620 350 27 63 2.17 3.41
1li5B01 81.31 Aminoacyl-tRNA biosynthesisZinc ion bindingCysteinyl-tRNA aminoacylationRNA bindingCysteinyl-tRNA synthetase 3.40.50.620 256 18 76 2.36 3.10
1j09A01 75.79 Aminoacyl-tRNA biosynthesisThermus thermophilus HB8Porphyrin and chlorophyll metabolismGlutamyl-tRNA synthetase [EC:6.1.1.17]Glutamyl-tRNA synthetase 3.40.50.620 121 15 53 2.64 4.91
1wkbA01 73.91 Leucyl-tRNA synthetase [EC:6.1.1.4]Aminoacyl-tRNA biosynthesisPyrococcus horikoshiiLeucyl-tRNA synthetaseValine, leucine and isoleucine biosynthesis 3.40.50.620 443 24 50 2.33 4.63
1f7uA01 73.71 Aminoacyl-tRNA biosynthesisArginyl-tRNA synthetase, cytoplasmicArginine-tRNA ligase activityArginyl-tRNA synthetase [EC:6.1.1.19]Arginyl-tRNA aminoacylation 3.40.50.620 347 15 61 3.03 4.96
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Displaying entries 1 to 6 (page 1 of 1)


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Domain ATOM Sequence 

>pdb|2d5bA01
MEKVFYVTTPIYYVNAEPHLGHAYTTVVADFLARWHRLDGYRTFFLTGTDEHGETVYRAAQAAGEDPKAFVDRVSGRFKR
AWDLLGIAYDDFIRTTEERHKKVVQLVLKKVYEAGWFDALLNYVSALDYPEGEAYRTFWPHAWHLIGKDILKPHAVFWPT
MLKAAGIPMYRHLNVGGFLLGPDGRKMSKTLGNVVDPFALLEKYGRDALRYYLLREIPYGQDTPV
BLAST against CATH

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Domain COMBS Sequence 

>pdb|2d5bA01
MEKVFYVTTPIYYVNAEPHLGHAYTTVVADFLARWHRLDGYRTFFLTGTDEHGETVYRAAQAAGEDPKAFVDRVSGRFKR
AWDLLGIAYDDFIRTTEERHKKVVQLVLKKVYEAGWFDALLNYVSALDYPEGEAYRTFWPHAWHLIGKDILKPHAVFWPT
MLKAAGIPMYRHLNVGGFLLGPDGRKMSKTLGNVVDPFALLEKYGRDALRYYLLREIPYGQDTPV
BLAST against CATH

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Domain History Events (8)

Domain assigned by auto on 11 Jan 2007 15:50

Assigning to "3.40.50.620" based on similarity with "1a8h001"

Flow stage update by auto on 11 Jan 2007 15:48

No in_process hits for Domain "2d5bA01" ready to be processed

Update comment by auto on 11 Jan 2007 11:53

Domain "2d5bA01" hits Domain "2d54A01" (100% over 100%) which is currently in process

Flow stage update by auto on 11 Jan 2007 11:47

Domain "2d5bA01" hits Domain "2d54A01" (100% over 100%) which is currently in process

Flow stage update by auto on 11 Jan 2007 11:47

NW result present for Domain "2d5bA01"

Flow stage update by auto on 09 Jan 2007 15:38

All required files are present for Domain "2d5bA01"

Flow stage update by auto on 08 Jan 2007 23:41

Beginning processing for Domain "2d5bA01"

Insertion by auto on 08 Jan 2007 23:23

Final ChopClose added based on similarity with "1woyA"