PDB entry 6v1s

View 6v1s on RCSB PDB site
Description: structure of the clostridioides difficile transferase toxin
Deposited on 2019-11-21, released 2020-03-18
The last revision was dated 2020-04-01, with a file datestamp of 2020-03-27.
Experiment type: EM
Resolution: 3.8 Å
R-factor: N/A
AEROSPACI score: 0.04 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: ADP-ribosyltransferase binding component
    Species: Clostridioides difficile [TaxId:1496]
    Gene: cdtB
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: ADP-ribosyltransferase binding component
    Species: Clostridioides difficile [TaxId:1496]
    Gene: cdtB
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: ADP-ribosyltransferase binding component
    Species: Clostridioides difficile [TaxId:1496]
    Gene: cdtB
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: ADP-ribosyltransferase binding component
    Species: Clostridioides difficile [TaxId:1496]
    Gene: cdtB
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: ADP-ribosyltransferase binding component
    Species: Clostridioides difficile [TaxId:1496]
    Gene: cdtB
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: ADP-ribosyltransferase binding component
    Species: Clostridioides difficile [TaxId:1496]
    Gene: cdtB
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: ADP-ribosyltransferase binding component
    Species: Clostridioides difficile [TaxId:1496]
    Gene: cdtB
    Database cross-references and differences (RAF-indexed):
  • Chain 'Z':
    Compound: ADP-ribosylating binary toxin enzymatic subunit CdtA
    Species: Clostridioides difficile [TaxId:1496]
    Gene: cdtA, E5N70_18065, SAMEA897066_00723
    Database cross-references and differences (RAF-indexed):
  • Heterogens: CA

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain 'A':
    Sequence, based on SEQRES records:
    >6v1sA (A:)
mkiqmrnkkvlsfltltaivsqalvypvyaqtstsnhsnkkkeivnedilpnnglmgyyf
tdehfkdlklmapikdgnlkfeekkvdklldkdksdvksirwtgriipskdgeytlstdr
ddvlmqvntestisntlkvnmkkgkeykvrielqdknlgsidnlsspnlyweldgmkkii
peenlflrdysniekddpfipnnnffdpklmsdwededldtdndnipdsyerngytikdl
iavkwedsfaeqgykkyvsnylesntagdpytdyekasgsfdkaikteardplvaaypiv
gvgmekliistnehastdqgktvsrattnsktesntagvsvnvgyqngftanvttnysht
tdnstavqdsngeswntglsinkgesayinanvryyntgtapmykvtpttnlvldgdtls
tikaqenqignnlspgdtypkkglsplalntmdqfssrlipinydqlkkldagkqiklet
tqvsgnfgtknssgqivtegnswsdyisqidsisasiildtenesyerrvtaknlqdped
ktpeltigeaiekafgatkkdgllyfndipidescvelifddntankikdslktlsdkki
ynvklergmniliktptyftnfddynnypstwsnvnttnqdglqgsanklngetkikipm
selkpykryvfsgyskdpltsnsiivkikakeektdylvpeqgytkfsyefettekdssn
ieitligsgttyldnlsitelnstpeildepevkiptdqeimdahkiyfadlnfnpstgn
tyingmyfaptqtnkealdyiqkyrveatlqysgfkdigtkdkemrnylgdpnqpktnyv
nlrsyftggenimtykklriyaitpddrellvlsvd

    Sequence, based on observed residues (ATOM records):
    >6v1sA (A:)
edldtdndnipdsyerngytikdliavkwedsfaeqgykkyvsnylesntagdpytdyek
asgsfdkaikteardplvaaypivgvgmekliistnenkgesayinanvryyntgtapmy
kvtpttnlvldgdtlstikaqenqignnlspgdtypkkglsplalntmdqfssrlipiny
dqlkkldagkqiklettqvsgnfgtknssgqivtegnswsdyisqidsisasiildtene
syerrvtaknlqdpedktpeltigeaiekafg

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6v1sB (B:)
mkiqmrnkkvlsfltltaivsqalvypvyaqtstsnhsnkkkeivnedilpnnglmgyyf
tdehfkdlklmapikdgnlkfeekkvdklldkdksdvksirwtgriipskdgeytlstdr
ddvlmqvntestisntlkvnmkkgkeykvrielqdknlgsidnlsspnlyweldgmkkii
peenlflrdysniekddpfipnnnffdpklmsdwededldtdndnipdsyerngytikdl
iavkwedsfaeqgykkyvsnylesntagdpytdyekasgsfdkaikteardplvaaypiv
gvgmekliistnehastdqgktvsrattnsktesntagvsvnvgyqngftanvttnysht
tdnstavqdsngeswntglsinkgesayinanvryyntgtapmykvtpttnlvldgdtls
tikaqenqignnlspgdtypkkglsplalntmdqfssrlipinydqlkkldagkqiklet
tqvsgnfgtknssgqivtegnswsdyisqidsisasiildtenesyerrvtaknlqdped
ktpeltigeaiekafgatkkdgllyfndipidescvelifddntankikdslktlsdkki
ynvklergmniliktptyftnfddynnypstwsnvnttnqdglqgsanklngetkikipm
selkpykryvfsgyskdpltsnsiivkikakeektdylvpeqgytkfsyefettekdssn
ieitligsgttyldnlsitelnstpeildepevkiptdqeimdahkiyfadlnfnpstgn
tyingmyfaptqtnkealdyiqkyrveatlqysgfkdigtkdkemrnylgdpnqpktnyv
nlrsyftggenimtykklriyaitpddrellvlsvd

    Sequence, based on observed residues (ATOM records):
    >6v1sB (B:)
tdndnipdsyerngytikdliavkwedsfaeqgykkyvsnylesntagdpytdyekasgs
fdkaikteardplvaaypivgvgmekliistnenkgesayinanvryyntgtapmykvtp
ttnlvldgdtlstikaqenqignnlspgdtypkkglsplalntmdqfssrlipinydqlk
kldagkqiklettqvsgnfgtknssgqivtegnswsdyisqidsisasiildtenesyer
rvtaknlqdpedktpeltigeaiekafg

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6v1sC (C:)
mkiqmrnkkvlsfltltaivsqalvypvyaqtstsnhsnkkkeivnedilpnnglmgyyf
tdehfkdlklmapikdgnlkfeekkvdklldkdksdvksirwtgriipskdgeytlstdr
ddvlmqvntestisntlkvnmkkgkeykvrielqdknlgsidnlsspnlyweldgmkkii
peenlflrdysniekddpfipnnnffdpklmsdwededldtdndnipdsyerngytikdl
iavkwedsfaeqgykkyvsnylesntagdpytdyekasgsfdkaikteardplvaaypiv
gvgmekliistnehastdqgktvsrattnsktesntagvsvnvgyqngftanvttnysht
tdnstavqdsngeswntglsinkgesayinanvryyntgtapmykvtpttnlvldgdtls
tikaqenqignnlspgdtypkkglsplalntmdqfssrlipinydqlkkldagkqiklet
tqvsgnfgtknssgqivtegnswsdyisqidsisasiildtenesyerrvtaknlqdped
ktpeltigeaiekafgatkkdgllyfndipidescvelifddntankikdslktlsdkki
ynvklergmniliktptyftnfddynnypstwsnvnttnqdglqgsanklngetkikipm
selkpykryvfsgyskdpltsnsiivkikakeektdylvpeqgytkfsyefettekdssn
ieitligsgttyldnlsitelnstpeildepevkiptdqeimdahkiyfadlnfnpstgn
tyingmyfaptqtnkealdyiqkyrveatlqysgfkdigtkdkemrnylgdpnqpktnyv
nlrsyftggenimtykklriyaitpddrellvlsvd

    Sequence, based on observed residues (ATOM records):
    >6v1sC (C:)
dnipdsyerngytikdliavkwedsfaeqgykkyvsnylesntagdpytdyekasgsfdk
aikteardplvaaypivgvgmekliistnenkgesayinanvryyntgtapmykvtpttn
lvldgdtlstikaqenqignnlspgdtypkkglsplalntmdqfssrlipinydqlkkld
agkqiklettqvsgnfgtknssgqivtegnswsdyisqidsisasiildtenesyerrvt
aknlqdpedktpeltigeaiekafg

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6v1sD (D:)
mkiqmrnkkvlsfltltaivsqalvypvyaqtstsnhsnkkkeivnedilpnnglmgyyf
tdehfkdlklmapikdgnlkfeekkvdklldkdksdvksirwtgriipskdgeytlstdr
ddvlmqvntestisntlkvnmkkgkeykvrielqdknlgsidnlsspnlyweldgmkkii
peenlflrdysniekddpfipnnnffdpklmsdwededldtdndnipdsyerngytikdl
iavkwedsfaeqgykkyvsnylesntagdpytdyekasgsfdkaikteardplvaaypiv
gvgmekliistnehastdqgktvsrattnsktesntagvsvnvgyqngftanvttnysht
tdnstavqdsngeswntglsinkgesayinanvryyntgtapmykvtpttnlvldgdtls
tikaqenqignnlspgdtypkkglsplalntmdqfssrlipinydqlkkldagkqiklet
tqvsgnfgtknssgqivtegnswsdyisqidsisasiildtenesyerrvtaknlqdped
ktpeltigeaiekafgatkkdgllyfndipidescvelifddntankikdslktlsdkki
ynvklergmniliktptyftnfddynnypstwsnvnttnqdglqgsanklngetkikipm
selkpykryvfsgyskdpltsnsiivkikakeektdylvpeqgytkfsyefettekdssn
ieitligsgttyldnlsitelnstpeildepevkiptdqeimdahkiyfadlnfnpstgn
tyingmyfaptqtnkealdyiqkyrveatlqysgfkdigtkdkemrnylgdpnqpktnyv
nlrsyftggenimtykklriyaitpddrellvlsvd

    Sequence, based on observed residues (ATOM records):
    >6v1sD (D:)
dedldtdndnipdsyerngytikdliavkwedsfaeqgykkyvsnylesntagdpytdye
kasgsfdkaikteardplvaaypivgvgmekliistnenkgesayinanvryyntgtapm
ykvtpttnlvldgdtlstikaqenqignnlspgdtypkkglsplalntmdqfssrlipin
ydqlkkldagkqiklettqvsgnfgtknssgqivtegnswsdyisqidsisasiildten
esyerrvtaknlqdpedktpeltigeaiekafg

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6v1sE (E:)
mkiqmrnkkvlsfltltaivsqalvypvyaqtstsnhsnkkkeivnedilpnnglmgyyf
tdehfkdlklmapikdgnlkfeekkvdklldkdksdvksirwtgriipskdgeytlstdr
ddvlmqvntestisntlkvnmkkgkeykvrielqdknlgsidnlsspnlyweldgmkkii
peenlflrdysniekddpfipnnnffdpklmsdwededldtdndnipdsyerngytikdl
iavkwedsfaeqgykkyvsnylesntagdpytdyekasgsfdkaikteardplvaaypiv
gvgmekliistnehastdqgktvsrattnsktesntagvsvnvgyqngftanvttnysht
tdnstavqdsngeswntglsinkgesayinanvryyntgtapmykvtpttnlvldgdtls
tikaqenqignnlspgdtypkkglsplalntmdqfssrlipinydqlkkldagkqiklet
tqvsgnfgtknssgqivtegnswsdyisqidsisasiildtenesyerrvtaknlqdped
ktpeltigeaiekafgatkkdgllyfndipidescvelifddntankikdslktlsdkki
ynvklergmniliktptyftnfddynnypstwsnvnttnqdglqgsanklngetkikipm
selkpykryvfsgyskdpltsnsiivkikakeektdylvpeqgytkfsyefettekdssn
ieitligsgttyldnlsitelnstpeildepevkiptdqeimdahkiyfadlnfnpstgn
tyingmyfaptqtnkealdyiqkyrveatlqysgfkdigtkdkemrnylgdpnqpktnyv
nlrsyftggenimtykklriyaitpddrellvlsvd

    Sequence, based on observed residues (ATOM records):
    >6v1sE (E:)
dwededldtdndnipdsyerngytikdliavkwedsfaeqgykkyvsnylesntagdpyt
dyekasgsfdkaikteardplvaaypivgvgmekliistnenkgesayinanvryyntgt
apmykvtpttnlvldgdtlstikaqenqignnlspgdtypkkglsplalntmdqfssrli
pinydqlkkldagkqiklettqvsgnfgtknssgqivtegnswsdyisqidsisasiild
tenesyerrvtaknlqdpedktpeltigeaiekafg

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6v1sF (F:)
mkiqmrnkkvlsfltltaivsqalvypvyaqtstsnhsnkkkeivnedilpnnglmgyyf
tdehfkdlklmapikdgnlkfeekkvdklldkdksdvksirwtgriipskdgeytlstdr
ddvlmqvntestisntlkvnmkkgkeykvrielqdknlgsidnlsspnlyweldgmkkii
peenlflrdysniekddpfipnnnffdpklmsdwededldtdndnipdsyerngytikdl
iavkwedsfaeqgykkyvsnylesntagdpytdyekasgsfdkaikteardplvaaypiv
gvgmekliistnehastdqgktvsrattnsktesntagvsvnvgyqngftanvttnysht
tdnstavqdsngeswntglsinkgesayinanvryyntgtapmykvtpttnlvldgdtls
tikaqenqignnlspgdtypkkglsplalntmdqfssrlipinydqlkkldagkqiklet
tqvsgnfgtknssgqivtegnswsdyisqidsisasiildtenesyerrvtaknlqdped
ktpeltigeaiekafgatkkdgllyfndipidescvelifddntankikdslktlsdkki
ynvklergmniliktptyftnfddynnypstwsnvnttnqdglqgsanklngetkikipm
selkpykryvfsgyskdpltsnsiivkikakeektdylvpeqgytkfsyefettekdssn
ieitligsgttyldnlsitelnstpeildepevkiptdqeimdahkiyfadlnfnpstgn
tyingmyfaptqtnkealdyiqkyrveatlqysgfkdigtkdkemrnylgdpnqpktnyv
nlrsyftggenimtykklriyaitpddrellvlsvd

    Sequence, based on observed residues (ATOM records):
    >6v1sF (F:)
edldtdndnipdsyerngytikdliavkwedsfaeqgykkyvsnylesntagdpytdyek
asgsfdkaikteardplvaaypivgvgmekliistnenkgesayinanvryyntgtapmy
kvtpttnlvldgdtlstikaqenqignnlspgdtypkkglsplalntmdqfssrlipiny
dqlkkldagkqiklettqvsgnfgtknssgqivtegnswsdyisqidsisasiildtene
syerrvtaknlqdpedktpeltigeaiekafg

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6v1sG (G:)
mkiqmrnkkvlsfltltaivsqalvypvyaqtstsnhsnkkkeivnedilpnnglmgyyf
tdehfkdlklmapikdgnlkfeekkvdklldkdksdvksirwtgriipskdgeytlstdr
ddvlmqvntestisntlkvnmkkgkeykvrielqdknlgsidnlsspnlyweldgmkkii
peenlflrdysniekddpfipnnnffdpklmsdwededldtdndnipdsyerngytikdl
iavkwedsfaeqgykkyvsnylesntagdpytdyekasgsfdkaikteardplvaaypiv
gvgmekliistnehastdqgktvsrattnsktesntagvsvnvgyqngftanvttnysht
tdnstavqdsngeswntglsinkgesayinanvryyntgtapmykvtpttnlvldgdtls
tikaqenqignnlspgdtypkkglsplalntmdqfssrlipinydqlkkldagkqiklet
tqvsgnfgtknssgqivtegnswsdyisqidsisasiildtenesyerrvtaknlqdped
ktpeltigeaiekafgatkkdgllyfndipidescvelifddntankikdslktlsdkki
ynvklergmniliktptyftnfddynnypstwsnvnttnqdglqgsanklngetkikipm
selkpykryvfsgyskdpltsnsiivkikakeektdylvpeqgytkfsyefettekdssn
ieitligsgttyldnlsitelnstpeildepevkiptdqeimdahkiyfadlnfnpstgn
tyingmyfaptqtnkealdyiqkyrveatlqysgfkdigtkdkemrnylgdpnqpktnyv
nlrsyftggenimtykklriyaitpddrellvlsvd

    Sequence, based on observed residues (ATOM records):
    >6v1sG (G:)
dedldtdndnipdsyerngytikdliavkwedsfaeqgykkyvsnylesntagdpytdye
kasgsfdkaikteardplvaaypivgvgmekliistnenkgesayinanvryyntgtapm
ykvtpttnlvldgdtlstikaqenqignnlspgdtypkkglsplalntmdqfssrlipin
ydqlkkldagkqiklettqvsgnfgtknssgqivtegnswsdyisqidsisasiildten
esyerrvtaknlqdpedktpeltigeaiekafg

  • Chain 'Z':
    Sequence, based on SEQRES records:
    >6v1sZ (Z:)
mkkfrkhkrisncisillilyltlggllpnniyaqdlqsysekvcnttykapierpedfl
kdkekakewerkeaerieqklersekealesykkdsveiskysqtrnyfydyqieansre
keykelrnaisknkidkpmyvyyfespekfafnkvirtenqneislekfnefketiqnkl
fkqdgfkdislyepgkgdekptpllmhlklprntgmlpytntnnvstlieqgysikidki
vrividgkhyikaeasvvssldfkddvskgdswgkanyndwsnkltpneladvndymrgg
ytainnylisngpvnnpnpeldskitnienalkrepiptnltvyrrsgpqefgltltspe
ydfnklenidafkskwegqalsypnfistsigsvnmsafakrkivlritipkgspgayls
aipgyageyevllnhgskfkinkidsykdgtitklivdatlip

    Sequence, based on observed residues (ATOM records):
    >6v1sZ (Z:)
erkeaerieqklersekealesykkdsveiskysqtrnyfydyqieansrekeykelrna
isknkidkpmyvyyfespekfafnkvirtenqneislekfnefketiqnklfkqdgfkdi
slyepgkgdekptpllmhlklprntgmlpytntnnvstlieqgysikidkivrividgkh
yikaeasvvssldfkddvskgdswgkanyndwsnkltpneladvndymrggytainnyli
sngpvnnpnpeldskitnienalkrepiptnltvyrrsgpqefgltltspeydfnkleni
dafkskwegqalsypnfistsigsvnmsafakrkivlritipkgspgaylsaipgyagey
evllnhgskfkinkidsykdgtitklivdatlip