CATH Domain: 1jvaB02

1jvaB02

PDB 1jva, Chain B, Domain 2

CATH Code	Level Description	Links
3	Alpha Beta
3.10	Roll
3.10.28	Endonuclease I-creI
3.10.28.10	Homing endonucleases	Gene3D
3.10.28.10.6
3.10.28.10.6.1
3.10.28.10.6.1.1
3.10.28.10.6.1.1.1
3.10.28.10.6.1.1.1.1

Structure
Sequence
History

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Segment boundaries for domain 1jvaB02

Domain	Start PDB Residue	Stop PDB Residue
1jvaB01	279	462
1jvaB01	699	741
1jvaB02	466	586
1jvaB03	587	681

What is a Structural Neighbour?

The term "structural neighbour" is used here to describe two CATH domains that share a degree of structural similarity. The SSAP algorithm is used to calculate this similarity and works by generating a structure-based pairwise alignment of the two domains then scoring this alignment using a RMSD score which has been normalised by the length of the larger domain divided by the number of aligned residues (SIMAX).

Structural Neighbourhood (2 entries)

There are 2 matching structural neighberhood comparisons for CATH ID 3.10.28.10.6.1.1.1.1 (SIMAX score < 5)

Match Depth	Match	SSAP score	Match Keywords	Match Superfamily	Length	Sequence Id	Overlap	RMSD	SIMAX
	2vs7A02	76.71	Desulfurococcus mobilisHoming endonuclease I-DmoI	3.10.28.10	78	11	69	3.27	4.73
	1dq3A03	74.82	Pyrimidine metabolismPyrococcus furiosusPurine metabolismRibonucleoside-diphosphate reductaseRibonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1]	3.10.28.10	87	14	64	2.49	3.86

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Domain ATOM Sequence

>pdb|1jvaB02
LYENDHFFDYMQKSKFHLTIEGPKVLAYLLGLWIGDGLSDRATFSVDSRDTSLMERVTEYAEKLNLCAEYKDRKEPQVAK
TVNLYSLNTENPLWDAIVGLGFLKDGVKNI

BLAST against CATH

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Domain COMBS Sequence

>pdb|1jvaB02
LYENDHFFDYMQKSKFHLTIEGPKVLAYLLGLWIGDGLSDRATFSVDSRDTSLMERVTEYAEKLNLCAEYKDRKEPQVAK
TVNLYSKVVRGNGIRNNLNTENPLWDAIVGLGFLKDGVKNI

BLAST against CATH

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Domain History Events (12)

Domain assigned by auto on 20 Oct 2008 14:27

Assigning to "3.10.28.10" based on similarity with "1ef0A02"

Flow stage update by auto on 20 Oct 2008 14:23

No in_process hits for Domain "1jvaB02" ready to be processed