5W3L | pdb_00005w3l

CryoEM structure of rhinovirus B14 in complex with C5 Fab (4 degrees Celsius, molar ratio 1:3, full particle)


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
BSCOP2B SuperfamilyPositive stranded ssRNA viruses-like 8036766 3000918 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
ATubulin_Ce5w3lA1 A: alpha arraysX: gH main domainH: gH main domainT: gH main domainF: Tubulin_CECOD (v295)
BTubulin_Ce5w3lB1 A: alpha arraysX: gH main domainH: gH main domainT: gH main domainF: Tubulin_CECOD (v295)
F [auth G]Tubulin_Ce5w3lG1 A: alpha arraysX: gH main domainH: gH main domainT: gH main domainF: Tubulin_CECOD (v295)
ETubulin_Ce5w3lE1 A: alpha arraysX: gH main domainH: gH main domainT: gH main domainF: Tubulin_CECOD (v295)
DTubulin_Ce5w3lD1 A: alpha arraysX: gH main domainH: gH main domainT: gH main domainF: Tubulin_CECOD (v295)
CTubulin_Ce5w3lC1 A: alpha arraysX: gH main domainH: gH main domainT: gH main domainF: Tubulin_CECOD (v295)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
A2.60.120.20 Mainly Beta Sandwich Jelly Rolls CATH (4.3.0)
B2.60.120.20 Mainly Beta Sandwich Jelly Rolls CATH (4.3.0)
F [auth G]2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (4.3.0)
D4.10.80.10 Few Secondary Structures Irregular Rhinovirus 14, subunit 4 Picornavirus coat protein VP4CATH (4.3.0)
C2.60.120.20 Mainly Beta Sandwich Jelly Rolls CATH (4.3.0)

IMGT Antibody Annotation IMGT Database Homepage

ChainProtein NameDescriptionOrganism NameGene Allele Name(s)Domain Name(s)Receptor TypeReceptor DescriptionProvenance Source
F [auth G]Fab C5 V-KAPPA Mus musculus (house mouse) IGKV12-41*02, IGKV12-41*01, IGKJ2*01 V-DOMAIN V-KAPPA IG VH-V-KAPPA IMGT (202625-0)
Fab C5 VH Mus musculus (house mouse) IGHV2-6-7*01, IGHV2-6-7*02, IGHJ3*01 V-DOMAIN VH IG VH-V-KAPPA IMGT (202625-0)

SAbDab Antibody Annotation SAbDab Database Homepage

ChainChain ClassChain SubclassChain TypeAntigen Name(s) Provenance Source
F [auth G]Light ChainIGKV12 Kappaviral protein 3 | viral protein 1 | viral protein 2SAbDab (2026-06-26)
Heavy ChainIGHV2 -viral protein 3 | viral protein 1 | viral protein 2SAbDab (2026-06-26)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
viral protein 1
viral protein 3
F [auth G]C5 antibody variable light domain---
C5 antibody variable heavy domain---
viral protein 4
viral protein 2

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
IPR001205RNA-directed RNA polymerase, C-terminal domainDomain
IPR043128Reverse transcriptase/Diguanylate cyclase domainHomologous Superfamily
IPR036988Picornavirus coat protein VP4 superfamilyHomologous Superfamily
IPR003593AAA+ ATPase domainDomain
IPR003138Picornavirus coat protein VP4Family
IPR000199Peptidase C3A/C3B, picornaviralDomain
IPR001676Picornavirus capsidDomain
IPR014759Helicase, superfamily 3, single-stranded RNA virusDomain
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
IPR000081Peptidase C3, picornavirus core protein 2ADomain
IPR043504Peptidase_S1_PA_chymotrypsinUnknown
IPR029053Viral coat protein subunitHomologous Superfamily
IPR009003Peptidase S1, PA clanHomologous Superfamily
IPR043502DNA/RNA polymerase superfamilyHomologous Superfamily
IPR044067Picornavirales 3C/3C-like protease domainDomain
IPR033703Picornavirus/Calicivirus coat proteinDomain
IPR0025272B protein, picornavirusDomain
IPR014838Poliovirus 3A protein-likeDomain
IPR036203Poliovirus core protein 3a, soluble domainHomologous Superfamily
IPR007094RNA-directed RNA polymerase, catalytic domainDomain
IPR000605Helicase, superfamily 3, single-stranded DNA/RNA virusDomain
IPR001205RNA-directed RNA polymerase, C-terminal domainDomain
IPR043128Reverse transcriptase/Diguanylate cyclase domainHomologous Superfamily
IPR036988Picornavirus coat protein VP4 superfamilyHomologous Superfamily
IPR003593AAA+ ATPase domainDomain
IPR003138Picornavirus coat protein VP4Family
IPR000199Peptidase C3A/C3B, picornaviralDomain
IPR001676Picornavirus capsidDomain
IPR014759Helicase, superfamily 3, single-stranded RNA virusDomain
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
IPR000081Peptidase C3, picornavirus core protein 2ADomain
IPR043504Peptidase_S1_PA_chymotrypsinUnknown
IPR029053Viral coat protein subunitHomologous Superfamily
IPR009003Peptidase S1, PA clanHomologous Superfamily
IPR043502DNA/RNA polymerase superfamilyHomologous Superfamily
IPR044067Picornavirales 3C/3C-like protease domainDomain
IPR033703Picornavirus/Calicivirus coat proteinDomain
IPR0025272B protein, picornavirusDomain
IPR014838Poliovirus 3A protein-likeDomain
IPR036203Poliovirus core protein 3a, soluble domainHomologous Superfamily
IPR007094RNA-directed RNA polymerase, catalytic domainDomain
IPR000605Helicase, superfamily 3, single-stranded DNA/RNA virusDomain
IPR001205RNA-directed RNA polymerase, C-terminal domainDomain
IPR043128Reverse transcriptase/Diguanylate cyclase domainHomologous Superfamily
IPR036988Picornavirus coat protein VP4 superfamilyHomologous Superfamily
IPR003593AAA+ ATPase domainDomain
IPR003138Picornavirus coat protein VP4Family
IPR000199Peptidase C3A/C3B, picornaviralDomain
IPR001676Picornavirus capsidDomain
IPR014759Helicase, superfamily 3, single-stranded RNA virusDomain
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
IPR000081Peptidase C3, picornavirus core protein 2ADomain
IPR043504Peptidase_S1_PA_chymotrypsinUnknown
IPR029053Viral coat protein subunitHomologous Superfamily
IPR009003Peptidase S1, PA clanHomologous Superfamily
IPR043502DNA/RNA polymerase superfamilyHomologous Superfamily
IPR044067Picornavirales 3C/3C-like protease domainDomain
IPR033703Picornavirus/Calicivirus coat proteinDomain
IPR0025272B protein, picornavirusDomain
IPR014838Poliovirus 3A protein-likeDomain
IPR036203Poliovirus core protein 3a, soluble domainHomologous Superfamily
IPR007094RNA-directed RNA polymerase, catalytic domainDomain
IPR000605Helicase, superfamily 3, single-stranded DNA/RNA virusDomain
IPR001205RNA-directed RNA polymerase, C-terminal domainDomain
IPR043128Reverse transcriptase/Diguanylate cyclase domainHomologous Superfamily
IPR036988Picornavirus coat protein VP4 superfamilyHomologous Superfamily
IPR003593AAA+ ATPase domainDomain
IPR003138Picornavirus coat protein VP4Family
IPR000199Peptidase C3A/C3B, picornaviralDomain
IPR001676Picornavirus capsidDomain
IPR014759Helicase, superfamily 3, single-stranded RNA virusDomain
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
IPR000081Peptidase C3, picornavirus core protein 2ADomain
IPR043504Peptidase_S1_PA_chymotrypsinUnknown
IPR029053Viral coat protein subunitHomologous Superfamily
IPR009003Peptidase S1, PA clanHomologous Superfamily
IPR043502DNA/RNA polymerase superfamilyHomologous Superfamily
IPR044067Picornavirales 3C/3C-like protease domainDomain
IPR033703Picornavirus/Calicivirus coat proteinDomain
IPR0025272B protein, picornavirusDomain
IPR014838Poliovirus 3A protein-likeDomain
IPR036203Poliovirus core protein 3a, soluble domainHomologous Superfamily
IPR007094RNA-directed RNA polymerase, catalytic domainDomain
IPR000605Helicase, superfamily 3, single-stranded DNA/RNA virusDomain