2C1LA

Structure of the bfii restriction endonuclease
Total Genus 118
50100150200250300350020406080100120
Genus TraceResidueGenus

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
118
sequence length
358
structure length
358
Chain Sequence
MNFFSLHPNVYATGRPKGLIGMLENVWVSNHTPGEGTLYLISGFSNYNGGVRFYETFTEHINQGGRVIAILGGSTSQRLSSRQVVEELLNRGVEVHIINRKRILHAKLYGTSNNLGESLVVSSGNFTGPGMSQNIEASLLLDNNTTQSMGFSWNDMISEMLNQNWHIHNMTNATDASPGWNLLYDERTTNLTLDETERVTLIVTLGHADTARIQAAPGTTAGQGTQYFWLSKDSYDFFPPLTIRNRRGTKATYSSLINMNYIDINYTDTQCRVTFEAENNFDFRLGTGKLRYTGVAKSNDIAAITRVGDSDYELRIIKQGTPEHSQLDPYAVSFIGNRGKRFGYISNEEFGRIIGVTF
5010015020025030035035030025020015010050
020406080100Genus Matrix

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
EMPTYS1 (3-7)TII1 (7-10)S2 (11-12)AH1 (19-28)S18 (333-334)TIV1 (6-9)TI2 (50-53)S6 (107-113)AH2 (53-63)TI1 (28-31)TII2 (32-35)S3 (37-42)TVIII1 (42-45)S4 (66-72)3H1 (47-49)AH3 (82-91)TI6 (185-188)TI7 (234-237)S13 (252-261)S5 (94-99)3H3 (178-182)TI3 (74-77)TII3 (170-173)TVIII2 (100-103)TI4 (113-116)S7 (116-122)TIV2 (231-234)S9 (166-169)TI10 (308-311)TVIII3 (186-189)TVIII4 (190-193)3H4 (195-197)O1 (197-199)S10 (199-205)AH8 (347-354)TII7 (297-300)3H5 (207-209)S11 (227-230)AH6 (210-214)TII6 (290-293)TII4 (216-219)3H6 (220-222)TIV4 (277-280)S15 (282-286)S16 (300-308)S17 (311-317)S12 (243-244)TII5 (246-249)3H7 (262-264)3H8 (288-290)S14 (266-276)TI9 (276-279)TII8 (318-321)AH7 (322-327)3H9 (328-330)S19 (341-346)AH4 (143-149)AH5 (153-161)TI5 (174-177)S8 (136-141)3H2 (129-131)Updating...
connected with : NaN
molecule tags Hydrolase
source organism Bacillus firmus
publication title Structure of the Metal-Independent Restriction Enzyme Bfii Reveals Fusion of a Specific DNA-Binding Domain with a Nonspecific Nuclease.
pubmed doi rcsb
molecule keywords RESTRICTION ENDONUCLEASE
total genus 118
structure length 358
sequence length 358
chains with identical sequence B
ec nomenclature ec 3.1.21.4: Type II site-specific deoxyribonuclease.
pdb deposition date 2005-09-15

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF13091 PLDc_2 PLD-like domain
A PF18243 BfiI_DBD Metal-independent restriction enzyme BfiI DNA binding domain
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.40.330.30 Mainly Beta Beta Barrel At1g16640 B3 domain At1g16640 B3 domain 2c1lA02
3.30.870.10 Alpha Beta 2-Layer Sandwich Endonuclease; Chain A Endonuclease Chain A 2c1lA01
4GELA 1F0IA 3SQ3A 4H4AA 1V0SA 1XDOA 2O8RA 2ZE4A 1RGUA 4GENA 5BQTA 5BOXA 2ZE9A 1V0RA 1RH0A 3SQ5A 3SQ7A 3HSIA 1NOPA 4GEMA 2C1LA 4GGJA 3QPHA 4URJA 5BPIA 3ZI5A 2F5TX 3SQ8A 1V0TA 1V0YA 1RG2A 4GGKA 5BPDA 1V0VA 1BYSA 1MU7A 1BYRA 1RFFA 1RGTA 1MU9A 4RCTA 1RFIA 1XDPA 5LZKA 1RG1A 1V0UA 1QZQA 1V0WA 1JY1A 1Q32A
chains in the Genus database with same CATH superfamily
1N0FA 4LDVA 4GELA 1F0IA 3SQ3A 4H4AA 1CW0A 1V0SA 1XDOA 3HRLA 2O8RA 4I1KA 2ZE4A 1VSRA 1RGUA 3R3PA 4GENA 5BQTA 4LDYA 4LDWA 5BOXA 2ZE9A 1V0RA 1RH0A 3SQ5A 3SQ7A 1WIDA 4LDXA 1N0EA 3HSIA 2C1LA 4GEMA 1NOPA 4GGJA 3QPHA 1N0GA 4URJA 5BPIA 3ZI5A 2F5TX 3SQ8A 1V0TA 1V0YA 1RG2A 1ODGA 4GGKA 5BPDA 1V0VA 3HQFA 1NA6A 1BYSA 1MU7A 1BYRA 2YMBA 1RFFA 1RGTA 1MU9A 4RCTA 1YELA 1RFIA 1XDPA 5LZKA 1RG1A 4A5ZA 1V0UA 4LDUA 1QZQA 1V0WA 1JY1A 1Q32A
chains in the Genus database with same CATH topology
1N0FA 4GELA 1F0IA 3SQ3A 4H4AA 1V0SA 1XDOA 2O8RA 2ZE4A 1RGUA 4GENA 5BQTA 5BOXA 2ZE9A 1V0RA 1RH0A 3SQ5A 3SQ7A 3HSIA 1N0EA 4GEMA 2C1LA 1NOPA 4GGJA 3QPHA 1N0GA 4URJA 5BPIA 3ZI5A 2F5TX 3SQ8A 1V0TA 1V0YA 1RG2A 4GGKA 5BPDA 1V0VA 1BYSA 1MU7A 1BYRA 1RFFA 1RGTA 1MU9A 4RCTA 1RFIA 1XDPA 5LZKA 1RG1A 1V0UA 1QZQA 1V0WA 1JY1A 1Q32A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4GEL A;  1F0I A;  3SQ3 A;  4H4A A;  1V0S A;  1XDO A;  2O8R A;  2ZE4 A;  1RGU A;  4GEN A;  5BQT A;  5BOX A;  2ZE9 A;  1V0R A;  1RH0 A;  3SQ5 A;  3SQ7 A;  3HSI A;  1NOP A;  4GEM A;  2C1L A;  4GGJ A;  3QPH A;  4URJ A;  5BPI A;  3ZI5 A;  2F5T X;  3SQ8 A;  1V0T A;  1V0Y A;  1RG2 A;  4GGK A;  5BPD A;  1V0V A;  1BYS A;  1MU7 A;  1BYR A;  1RFF A;  1RGT A;  1MU9 A;  4RCT A;  1RFI A;  1XDP A;  5LZK A;  1RG1 A;  1V0U A;  1QZQ A;  1V0W A;  1JY1 A;  1Q32 A; 
#chains in the Genus database with same CATH topology
 1N0F A;  4LDV A;  4GEL A;  1F0I A;  3SQ3 A;  4H4A A;  1CW0 A;  1V0S A;  1XDO A;  3HRL A;  2O8R A;  4I1K A;  2ZE4 A;  1VSR A;  1RGU A;  3R3P A;  4GEN A;  5BQT A;  4LDY A;  4LDW A;  5BOX A;  2ZE9 A;  1V0R A;  1RH0 A;  3SQ5 A;  3SQ7 A;  1WID A;  4LDX A;  1N0E A;  3HSI A;  2C1L A;  4GEM A;  1NOP A;  4GGJ A;  3QPH A;  1N0G A;  4URJ A;  5BPI A;  3ZI5 A;  2F5T X;  3SQ8 A;  1V0T A;  1V0Y A;  1RG2 A;  1ODG A;  4GGK A;  5BPD A;  1V0V A;  3HQF A;  1NA6 A;  1BYS A;  1MU7 A;  1BYR A;  2YMB A;  1RFF A;  1RGT A;  1MU9 A;  4RCT A;  1YEL A;  1RFI A;  1XDP A;  5LZK A;  1RG1 A;  4A5Z A;  1V0U A;  4LDU A;  1QZQ A;  1V0W A;  1JY1 A;  1Q32 A; 
#chains in the Genus database with same CATH homology
 1N0F A;  4GEL A;  1F0I A;  3SQ3 A;  4H4A A;  1V0S A;  1XDO A;  2O8R A;  2ZE4 A;  1RGU A;  4GEN A;  5BQT A;  5BOX A;  2ZE9 A;  1V0R A;  1RH0 A;  3SQ5 A;  3SQ7 A;  3HSI A;  1N0E A;  4GEM A;  2C1L A;  1NOP A;  4GGJ A;  3QPH A;  1N0G A;  4URJ A;  5BPI A;  3ZI5 A;  2F5T X;  3SQ8 A;  1V0T A;  1V0Y A;  1RG2 A;  4GGK A;  5BPD A;  1V0V A;  1BYS A;  1MU7 A;  1BYR A;  1RFF A;  1RGT A;  1MU9 A;  4RCT A;  1RFI A;  1XDP A;  5LZK A;  1RG1 A;  1V0U A;  1QZQ A;  1V0W A;  1JY1 A;  1Q32 A; 
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