8CKB | pdb_00008ckb

Asymmetric reconstruction of the crAss001 virion


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
BZ [auth C033]Ferritine8ckbC0331 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
CAA [auth C060]Ferritine8ckbC0601 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
FY [auth C011]Ferritine8ckbC0111 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
LAA [auth C069]Ferritine8ckbC0691 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
MY [auth C018]Ferritine8ckbC0181 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
NY [auth C019]Ferritine8ckbC0191 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
TZ [auth C051]Ferritine8ckbC0511 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
ZZ [auth C057]Ferritine8ckbC0571 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
ZY [auth C031]Ferritine8ckbC0311 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
ZX [auth C005]Ferritine8ckbC0051 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
YZ [auth C056]Ferritine8ckbC0561 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
YY [auth C030]Ferritine8ckbC0301 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
YX [auth C004]Ferritine8ckbC0041 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
XZ [auth C055]Ferritine8ckbC0551 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
XY [auth C029]Ferritine8ckbC0291 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
XX [auth C003]Ferritine8ckbC0031 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
WZ [auth C054]Ferritine8ckbC0541 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
WY [auth C028]Ferritine8ckbC0281 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
WX [auth C002]Ferritine8ckbC0021 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
VZ [auth C053]Ferritine8ckbC0531 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
VY [auth C027]Ferritine8ckbC0271 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
VX [auth C001]Ferritine8ckbC0011 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
UZ [auth C052]Ferritine8ckbC0521 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
UY [auth C026]Ferritine8ckbC0261 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
TY [auth C025]Ferritine8ckbC0251 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
SZ [auth C050]Ferritine8ckbC0501 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
SY [auth C024]Ferritine8ckbC0241 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
RZ [auth C049]Ferritine8ckbC0491 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
RY [auth C023]Ferritine8ckbC0231 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
RAA [auth C075]Ferritine8ckbC0751 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
QZ [auth C048]Ferritine8ckbC0481 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
QY [auth C022]Ferritine8ckbC0221 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
QAA [auth C074]Ferritine8ckbC0741 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
PZ [auth C047]Ferritine8ckbC0471 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
PY [auth C021]Ferritine8ckbC0211 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
PAA [auth C073]Ferritine8ckbC0731 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
OZ [auth C046]Ferritine8ckbC0461 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
OY [auth C020]Ferritine8ckbC0201 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
OAA [auth C072]Ferritine8ckbC0721 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
NZ [auth C045]Ferritine8ckbC0451 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
NAA [auth C071]Ferritine8ckbC0711 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
MZ [auth C044]Ferritine8ckbC0441 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
MAA [auth C070]Ferritine8ckbC0701 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
LZ [auth C043]Ferritine8ckbC0431 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
LY [auth C017]Ferritine8ckbC0171 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
KZ [auth C042]Ferritine8ckbC0421 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
KY [auth C016]Ferritine8ckbC0161 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
KAA [auth C068]Ferritine8ckbC0681 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
JZ [auth C041]Ferritine8ckbC0411 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
JY [auth C015]Ferritine8ckbC0151 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
JAA [auth C067]Ferritine8ckbC0671 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
IZ [auth C040]Ferritine8ckbC0401 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
IY [auth C014]Ferritine8ckbC0141 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
IAA [auth C066]Ferritine8ckbC0661 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
HZ [auth C039]Ferritine8ckbC0391 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
HY [auth C013]Ferritine8ckbC0131 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
HAA [auth C065]Ferritine8ckbC0651 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
GZ [auth C038]Ferritine8ckbC0381 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
GY [auth C012]Ferritine8ckbC0121 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
GAA [auth C064]Ferritine8ckbC0641 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
FZ [auth C037]Ferritine8ckbC0371 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
FAA [auth C063]Ferritine8ckbC0631 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
EZ [auth C036]Ferritine8ckbC0361 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
EY [auth C010]Ferritine8ckbC0101 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
EAA [auth C062]Ferritine8ckbC0621 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
DZ [auth C035]Ferritine8ckbC0351 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
DY [auth C009]Ferritine8ckbC0091 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
DAA [auth C061]Ferritine8ckbC0611 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
CZ [auth C034]Ferritine8ckbC0341 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
CY [auth C008]Ferritine8ckbC0081 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
BY [auth C007]Ferritine8ckbC0071 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
BAA [auth C059]Ferritine8ckbC0591 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
AZ [auth C032]Ferritine8ckbC0321 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
AY [auth C006]Ferritine8ckbC0061 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)
AAA [auth C058]Ferritine8ckbC0581 A: alpha arraysX: HTHH: HTHT: Three-helical HTHF: FerritinECOD (v295)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF25731Crassvirus muzzle protein (crAss_MUZ)Crassvirus muzzle protein- Family
PF25729Crassvirus muzzle protein C-terminal domain (crAss_MUZ_C)Crassvirus muzzle protein C-terminal domainThis entry represents the C-terminal beta sandwich domain found in the muzzle protein found at the distal end of the tail in bacteriophages of the Crassviridae family. This large protein forms a hexameric assembly at the tip of the tail barrel and ex ...This entry represents the C-terminal beta sandwich domain found in the muzzle protein found at the distal end of the tail in bacteriophages of the Crassviridae family. This large protein forms a hexameric assembly at the tip of the tail barrel and exhibits a novel fold designated as the crass fold. The muzzle protein is composed of five domains: a ring-joining domain, a seven-bladed beta-propeller domain, two immunoglobulin-like domains (IG1 and IG2), and the crass domain. The muzzle protein forms a gate-like structure that likely serves as a gatekeeper controlling the ejection of cargo proteins and viral DNA during infection. The gate is formed by a loop within blade 4 of the propeller domain. The crass domain, with its exposed surface loops, likely plays a role in contacting the host cell surface, initiating conformational changes that open the gate. The muzzle protein is highly conserved among crassviruses, though with length variations resulting from insertions in the crass and IG2 domains that affect surface properties. This protein has been structurally characterized in Bacteroides phage crAss001 [1].
Domain
PF23898Crassvirus major capsid protein (Crass_capsid)Crassvirus major capsid protein- Family
PF25711Crassvirus tail hub protein B (crAss_THB)Crassvirus tail hub protein B- Family
PF25724Crassvirus tail hub protein A (crAss_THA)Crassvirus tail hub protein A- Family
PF25710Phage tail ring protein 3/4 (CrAss_Ring_3_4)Phage tail ring protein 3/4- Family
PF25710Phage tail ring protein 3/4 (CrAss_Ring_3_4)Phage tail ring protein 3/4- Family
PF25702Phage tail ring protein 2 (CrAss_Ring_2)Phage tail ring protein 2This entry represents the Ring 1 (R2) protein, also known as gp40, which is part of the tail assembly in crassviruses. The R2 protein forms one of five stacked dodecameric rings that make up the tail barrel. These proteins share a conserved fold cons ...This entry represents the Ring 1 (R2) protein, also known as gp40, which is part of the tail assembly in crassviruses. The R2 protein forms one of five stacked dodecameric rings that make up the tail barrel. These proteins share a conserved fold consisting of two domains: an alpha-helical domain and a beta-sandwich domain. The extended tail barrel formed by these ring proteins is a distinctive feature of crassviruses and may assist the tail muzzle in reaching the outer cell membrane through the compact capsular polysaccharide layer of the host bacteria.
Domain
PF24228Phage tail ring protein 1 (CrAss_Ring_1)Phage tail ring protein 1- Family
PF25650Bacteriophage crAss001 auxiliary capsid protein (crAss_AuxCP)Bacteriophage crAss001 auxiliary capsid protein- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
Portal protein gp20- -
Cargo protein 1 gp45-
Muzzle protein gp44- -
Major capsid protein gp32- -
Muzzle bound helix---
Head fiber trimer protein gp21---
Head fiber dimer protein gp29-
QS [auth A511]Head fiber dimer protein gp29-
Tail hub protein B gp39- -
Tail hub protein A gp38- -
Tail fiber protein gp22-
Ring protein 4/5 gp34- -
Ring protein 3 gp35- -
Ring protein 2 gp40- -
Ring protein 1 gp43- -
Portal vertex capsid protein gp57- -
Auxiliary capsid protein gp36- -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR058049Cargo protein 1, compact domainDomain
IPR057889Crassvirus muzzle protein, N-terminal regionDomain
IPR057888Crassvirus muzzle protein, C-terminal domainDomain
IPR056401Major capsid protein, crassvirusFamily
IPR022741Bacteriophage B103, Gp8, head fibreFamily
QS [auth A511]IPR057859HFD-like domainDomain
IPR057875Tail hub protein BFamily
IPR057876Tail hub protein AFamily
IPR006626Parallel beta-helix repeatRepeat
IPR012334Pectin lyase foldHomologous Superfamily
IPR039448Right handed beta helix domainDomain
IPR011050Pectin lyase fold/virulence factorHomologous Superfamily
IPR057877Phage tail ring protein 3/4Family
IPR057877Phage tail ring protein 3/4Family
IPR057878Phage tail ring protein 2Family
IPR057118Ring protein 1-likeFamily
IPR057879Portal vertex auxiliary proteinFamily
IPR058048Auxiliary capsid protein, crAss001Family