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2UY7
Biol. Unit 2
Info
Asym.Unit (236 KB)
Biol.Unit 1 (62 KB)
Biol.Unit 2 (61 KB)
Biol.Unit 3 (60 KB)
Biol.Unit 4 (61 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE P PILUS ROD SUBUNIT PAPA
Authors
:
D. Verger, E. Bullitt, S. J. Hultgren, G. Waksman
Date
:
02 Apr 07 (Deposition) - 29 May 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: E,F (1x)
Biol. Unit 4: G,H (1x)
Keywords
:
Donor Strand Complementation, Pili/N-Terminal Extension, Pilus Biogenesis, Donor-Strand Exchange, Nte, Dsc, Dse, Papa, Papd, Fimbria, Chaperone
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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Reference
:
D. Verger, E. Bullitt, S. J. Hultgren, G. Waksman
Crystal Structure Of The P Pilus Rod Subunit Papa.
Plos Pathog. V. 3 E73 2007
[
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Hetero Components
(1, 3)
Info
All Hetero Components
1a: SULFATE ION (SO4a)
1b: SULFATE ION (SO4b)
1c: SULFATE ION (SO4c)
1d: SULFATE ION (SO4d)
1e: SULFATE ION (SO4e)
1f: SULFATE ION (SO4f)
1g: SULFATE ION (SO4g)
1h: SULFATE ION (SO4h)
1i: SULFATE ION (SO4i)
1j: SULFATE ION (SO4j)
1k: SULFATE ION (SO4k)
1l: SULFATE ION (SO4l)
1m: SULFATE ION (SO4m)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
SO4
3
Ligand/Ion
SULFATE ION
[
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Sites
(3, 3)
Info
All Sites
1: AC6 (SOFTWARE)
2: AC7 (SOFTWARE)
3: AC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC6
SOFTWARE
VAL C:137 , ARG C:142 , ARG E:82 , TYR E:150 , SER E:174
BINDING SITE FOR RESIDUE SO4 C1217
2
AC7
SOFTWARE
ARG C:82 , TYR C:150 , SER C:174 , VAL E:137 , ARG E:142 , HOH E:2027
BINDING SITE FOR RESIDUE SO4 C1218
3
AC8
SOFTWARE
LYS C:44 , ARG C:91 , THR G:47
BINDING SITE FOR RESIDUE SO4 C1219
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: PILI_CHAPERONE (C:78-95)
;
View:
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Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PILI_CHAPERONE
PS00635
Gram-negative pili assembly chaperone signature.
PAPD_ECOLX
99-116
1
-
C:78-95
-
-
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(4, 12)
Info
All SCOP Domains
1a: SCOP_d2uy7a2 (A:125-217)
1b: SCOP_d2uy7c2 (C:125-217)
1c: SCOP_d2uy7e2 (E:125-217)
1d: SCOP_d2uy7g2 (G:125-217)
2a: SCOP_d2uy7d_ (D:)
2b: SCOP_d2uy7f_ (F:)
2c: SCOP_d2uy7h_ (H:)
3a: SCOP_d2uy7b1 (B:8-163)
4a: SCOP_d2uy7a1 (A:1-124)
4b: SCOP_d2uy7c1 (C:1-124)
4c: SCOP_d2uy7e1 (E:1-124)
4d: SCOP_d2uy7g1 (G:1-124)
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(
)
(
)
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)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
C2 domain-like
(198)
Superfamily
:
Periplasmic chaperone C-domain
(38)
Family
:
Periplasmic chaperone C-domain
(33)
Protein domain
:
PapD
(14)
Escherichia coli [TaxId: 562]
(14)
1a
d2uy7a2
A:125-217
1b
d2uy7c2
C:125-217
1c
d2uy7e2
E:125-217
1d
d2uy7g2
G:125-217
Fold
:
Common fold of diphtheria toxin/transcription factors/cytochrome f
(364)
Superfamily
:
Bacterial adhesins
(93)
Family
:
Pilus subunits
(59)
Protein domain
:
automated matches
(16)
Escherichia coli [TaxId: 562]
(4)
2a
d2uy7d_
D:
2b
d2uy7f_
F:
2c
d2uy7h_
H:
Protein domain
:
Pap fimbrial major pilin protein PapA
(2)
Escherichia coli [TaxId: 562]
(2)
3a
d2uy7b1
B:8-163
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
PapD-like
(47)
Family
:
Pilus chaperone
(36)
Protein domain
:
Pilus chaperone PapD, N-domain
(14)
Escherichia coli [TaxId: 562]
(14)
4a
d2uy7a1
A:1-124
4b
d2uy7c1
C:1-124
4c
d2uy7e1
E:1-124
4d
d2uy7g1
G:1-124
[
close SCOP info
]
CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_2uy7A02 (A:122-213)
1b: CATH_2uy7C02 (C:122-213)
1c: CATH_2uy7E02 (E:122-213)
1d: CATH_2uy7G02 (G:122-213)
2a: CATH_2uy7A01 (A:1-121)
2b: CATH_2uy7C01 (C:1-121)
2c: CATH_2uy7E01 (E:1-121)
2d: CATH_2uy7G01 (G:1-121)
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)
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)
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
[code=2.60.40.1070, no name defined]
(29)
Escherichia coli. Organism_taxid: 364106. Strain: uti89.
(4)
1a
2uy7A02
A:122-213
1b
2uy7C02
C:122-213
1c
2uy7E02
E:122-213
1d
2uy7G02
G:122-213
Homologous Superfamily
:
PapD-like
(38)
Escherichia coli. Organism_taxid: 364106. Strain: uti89.
(4)
2a
2uy7A01
A:1-121
2b
2uy7C01
C:1-121
2c
2uy7E01
E:1-121
2d
2uy7G01
G:1-121
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Pfam Domains
(3, 12)
Info
all PFAM domains
1a: PFAM_Fimbrial_2uy7H01 (H:11-163)
1b: PFAM_Fimbrial_2uy7H02 (H:11-163)
1c: PFAM_Fimbrial_2uy7H03 (H:11-163)
1d: PFAM_Fimbrial_2uy7H04 (H:11-163)
2a: PFAM_Pili_assembly_N_2uy7G01 (G:1-121)
2b: PFAM_Pili_assembly_N_2uy7G02 (G:1-121)
2c: PFAM_Pili_assembly_N_2uy7G03 (G:1-121)
2d: PFAM_Pili_assembly_N_2uy7G04 (G:1-121)
3a: PFAM_Pili_assembly_C_2uy7G05 (G:141-204)
3b: PFAM_Pili_assembly_C_2uy7G06 (G:141-204)
3c: PFAM_Pili_assembly_C_2uy7G07 (G:141-204)
3d: PFAM_Pili_assembly_C_2uy7G08 (G:141-204)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Adhesin
(36)
Family
:
Fimbrial
(23)
Escherichia coli
(15)
1a
Fimbrial-2uy7H01
H:11-163
1b
Fimbrial-2uy7H02
H:11-163
1c
Fimbrial-2uy7H03
H:11-163
1d
Fimbrial-2uy7H04
H:11-163
Clan
:
E-set
(290)
Family
:
Pili_assembly_N
(20)
Escherichia coli (strain UTI89 / UPEC)
(3)
2a
Pili_assembly_N-2uy7G01
G:1-121
2b
Pili_assembly_N-2uy7G02
G:1-121
2c
Pili_assembly_N-2uy7G03
G:1-121
2d
Pili_assembly_N-2uy7G04
G:1-121
Clan
:
no clan defined [family: Pili_assembly_C]
(20)
Family
:
Pili_assembly_C
(20)
Escherichia coli (strain UTI89 / UPEC)
(3)
3a
Pili_assembly_C-2uy7G05
G:141-204
3b
Pili_assembly_C-2uy7G06
G:141-204
3c
Pili_assembly_C-2uy7G07
G:141-204
3d
Pili_assembly_C-2uy7G08
G:141-204
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