2IP6A

Crystal structure of pedb
Total Genus 35
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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
35
sequence length
87
structure length
87
Chain Sequence
EHIKQQALDLFTRLQFLLQKHDTIEPYQYVLDILETGISKTKHNQQTPERQARVVYNKIASQALVDKLHFTAEENKVLAAINELAHS
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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 Antimicrobial protein
molecule keywords PapB
publication title High resolution crystal structure of PedB: a structural basis for the classification of pediocin-like immunity proteins
pubmed doi rcsb
source organism Pediococcus pentosaceus
total genus 35
structure length 87
sequence length 87
ec nomenclature
pdb deposition date 2006-10-12

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF08951 EntA_Immun Enterocin A Immunity
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.20.1440.140 Mainly Alpha Up-down Bundle de novo design (two linked rop proteins) de novo design (two linked rop proteins) 2ip6A00
2IP6A 2ZRRA 2K19A
chains in the Genus database with same CATH superfamily
4Z7HA 2RADA 2E8GA 3L0IA 3FVVA 2V6EA 4PL5A 3I9V1 2BL7A 2MJFB 2GSCA 4I1TA 2YFAA 3IAM1 4GXTA 2BL8A 2IP6A 4OAUC 4AS2A 2RIOA 3KP9A 2QZGA 3Q8DA 4NV2A 1TDPA 4JCVE 4AS3A 3LJ1A 2QGMA 3SDJA 4NV5A 1YO7A 3LJ0A 3VA9A 2XTQA 2JAEA 4HFVA 4G75A 2FUG1 4YZ9A 2A2CA 2CAZB 2F66B 3DO9A 2JBWA 2F6MB 2P22B 4O1OA 2YFBA 4PL3A 2K19A 2V1CC 3F4MA 3B55A 2RLDA 2QSBA 2KKMA 3DA4A 2JB1A 2XMXA 4Q9VA 4DWLA 4OAVB 2A2DA 2ZRRA 4Z7GA 2FU2A 3P23A 2JB2A 3JSBA 4O1PA 3FBVA 1SJ8A 2XTRA 1JQOA 2ZW3A 4G76A 2FEFA 4HEA1 4YZCA 4YZDA 3IAS1 4PL4A 5HGIA 2HGKA 3DA3A 1U5KA 3FNBA 2ETDA 2JB3A 3UITA 1W3SA 3AJFA 4U6RA 5LNK1 2L1LB 3LJ2A
chains in the Genus database with same CATH topology
4Z7HA 2E8GA 3L0IA 2V6EA 4PL5A 3I9V1 2MJFB 4I1TA 2YFAA 3IAM1 4GXTA 2IP6A 4OAUC 4AS2A 2RIOA 3KP9A 3Q8DA 4NV2A 4JCVE 4AS3A 3LJ1A 3SDJA 4NV5A 1YO7A 3LJ0A 3VA9A 2XTQA 2JAEA 4HFVA 4G75A 2FUG1 4YZ9A 2A2CA 2CAZB 2F66B 3DO9A 2F6MB 2P22B 4O1OA 2YFBA 4PL3A 2K19A 2V1CC 3F4MA 2KKMA 3DA4A 2JB1A 2XMXA 4Q9VA 4DWLA 4OAVB 2A2DA 2ZRRA 4Z7GA 3P23A 2JB2A 3JSBA 4O1PA 3FBVA 1SJ8A 2XTRA 4G76A 4HEA1 4YZCA 4YZDA 3IAS1 4PL4A 5HGIA 3DA3A 1U5KA 2JB3A 3UITA 1W3SA 3AJFA 4U6RA 5LNK1 2L1LB 3LJ2A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2IP6 A;  2ZRR A;  2K19 A; 
#chains in the Genus database with same CATH topology
 4Z7H A;  2RAD A;  2E8G A;  3L0I A;  3FVV A;  2V6E A;  4PL5 A;  3I9V 1;  2BL7 A;  2MJF B;  2GSC A;  4I1T A;  2YFA A;  3IAM 1;  4GXT A;  2BL8 A;  2IP6 A;  4OAU C;  4AS2 A;  2RIO A;  3KP9 A;  2QZG A;  3Q8D A;  4NV2 A;  1TDP A;  4JCV E;  4AS3 A;  3LJ1 A;  2QGM A;  3SDJ A;  4NV5 A;  1YO7 A;  3LJ0 A;  3VA9 A;  2XTQ A;  2JAE A;  4HFV A;  4G75 A;  2FUG 1;  4YZ9 A;  2A2C A;  2CAZ B;  2F66 B;  3DO9 A;  2JBW A;  2F6M B;  2P22 B;  4O1O A;  2YFB A;  4PL3 A;  2K19 A;  2V1C C;  3F4M A;  3B55 A;  2RLD A;  2QSB A;  2KKM A;  3DA4 A;  2JB1 A;  2XMX A;  4Q9V A;  4DWL A;  4OAV B;  2A2D A;  2ZRR A;  4Z7G A;  2FU2 A;  3P23 A;  2JB2 A;  3JSB A;  4O1P A;  3FBV A;  1SJ8 A;  2XTR A;  1JQO A;  2ZW3 A;  4G76 A;  2FEF A;  4HEA 1;  4YZC A;  4YZD A;  3IAS 1;  4PL4 A;  5HGI A;  2HGK A;  3DA3 A;  1U5K A;  3FNB A;  2ETD A;  2JB3 A;  3UIT A;  1W3S A;  3AJF A;  4U6R A;  5LNK 1;  2L1L B;  3LJ2 A; 
#chains in the Genus database with same CATH homology
 4Z7H A;  2E8G A;  3L0I A;  2V6E A;  4PL5 A;  3I9V 1;  2MJF B;  4I1T A;  2YFA A;  3IAM 1;  4GXT A;  2IP6 A;  4OAU C;  4AS2 A;  2RIO A;  3KP9 A;  3Q8D A;  4NV2 A;  4JCV E;  4AS3 A;  3LJ1 A;  3SDJ A;  4NV5 A;  1YO7 A;  3LJ0 A;  3VA9 A;  2XTQ A;  2JAE A;  4HFV A;  4G75 A;  2FUG 1;  4YZ9 A;  2A2C A;  2CAZ B;  2F66 B;  3DO9 A;  2F6M B;  2P22 B;  4O1O A;  2YFB A;  4PL3 A;  2K19 A;  2V1C C;  3F4M A;  2KKM A;  3DA4 A;  2JB1 A;  2XMX A;  4Q9V A;  4DWL A;  4OAV B;  2A2D A;  2ZRR A;  4Z7G A;  3P23 A;  2JB2 A;  3JSB A;  4O1P A;  3FBV A;  1SJ8 A;  2XTR A;  4G76 A;  4HEA 1;  4YZC A;  4YZD A;  3IAS 1;  4PL4 A;  5HGI A;  3DA3 A;  1U5K A;  2JB3 A;  3UIT A;  1W3S A;  3AJF A;  4U6R A;  5LNK 1;  2L1L B;  3LJ2 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)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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