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1WPB
Biol. Unit 4
Info
Asym.Unit (500 KB)
Biol.Unit 1 (732 KB)
Biol.Unit 2 (730 KB)
Biol.Unit 3 (126 KB)
Biol.Unit 4 (127 KB)
Biol.Unit 5 (127 KB)
Biol.Unit 6 (128 KB)
Biol.Unit 7 (126 KB)
Biol.Unit 8 (127 KB)
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(1)
Title
:
STRUCTURE OF ESCHERICHIA COLI YFBU GENE PRODUCT
Authors
:
D. Borek, Y. Chen, M. Zheng, T. Skarina, A. Savchenko, A. Edwards, Z. Otw Midwest Center For Structural Genomics (Mcsg)
Date
:
01 Sep 04 (Deposition) - 07 Dec 04 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P
Biol. Unit 1: A,B,C,D,E,F,G,H (3x)
Biol. Unit 2: I,J,K,L,M,N,O,P (3x)
Biol. Unit 3: B,C,F,G (1x)
Biol. Unit 4: J,K,N,O (1x)
Biol. Unit 5: I,L,M,P (1x)
Biol. Unit 6: A,D,E,H (1x)
Biol. Unit 7: B,C,F,G (1x)
Biol. Unit 8: J,K,N,O (1x)
Keywords
:
Structural Genomics, Mcsg, Ncs, Regulatory Protein, Protein Structure Initiative, Psi, Midwest Center For Structural Genomics, Unknown Function
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. Borek, Y. Chen, M. Zheng, T. Skarina, A. Savchenko, A. Edwards, Z. Otwinowski
Crystal Structure Of Escherichia Coli Yfbu Gene Product
To Be Published
[
close entry info
]
Hetero Components
(1, 6)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1aa: CHLORIDE ION (CLaa)
1ab: CHLORIDE ION (CLab)
1ac: CHLORIDE ION (CLac)
1ad: CHLORIDE ION (CLad)
1ae: CHLORIDE ION (CLae)
1af: CHLORIDE ION (CLaf)
1ag: CHLORIDE ION (CLag)
1ah: CHLORIDE ION (CLah)
1ai: CHLORIDE ION (CLai)
1aj: CHLORIDE ION (CLaj)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
1h: CHLORIDE ION (CLh)
1i: CHLORIDE ION (CLi)
1j: CHLORIDE ION (CLj)
1k: CHLORIDE ION (CLk)
1l: CHLORIDE ION (CLl)
1m: CHLORIDE ION (CLm)
1n: CHLORIDE ION (CLn)
1o: CHLORIDE ION (CLo)
1p: CHLORIDE ION (CLp)
1q: CHLORIDE ION (CLq)
1r: CHLORIDE ION (CLr)
1s: CHLORIDE ION (CLs)
1t: CHLORIDE ION (CLt)
1u: CHLORIDE ION (CLu)
1v: CHLORIDE ION (CLv)
1w: CHLORIDE ION (CLw)
1x: CHLORIDE ION (CLx)
1y: CHLORIDE ION (CLy)
1z: CHLORIDE ION (CLz)
2a: GLYCEROL (GOLa)
2aa: GLYCEROL (GOLaa)
2ab: GLYCEROL (GOLab)
2ac: GLYCEROL (GOLac)
2ad: GLYCEROL (GOLad)
2ae: GLYCEROL (GOLae)
2af: GLYCEROL (GOLaf)
2ag: GLYCEROL (GOLag)
2ah: GLYCEROL (GOLah)
2ai: GLYCEROL (GOLai)
2aj: GLYCEROL (GOLaj)
2ak: GLYCEROL (GOLak)
2al: GLYCEROL (GOLal)
2am: GLYCEROL (GOLam)
2an: GLYCEROL (GOLan)
2ao: GLYCEROL (GOLao)
2ap: GLYCEROL (GOLap)
2aq: GLYCEROL (GOLaq)
2ar: GLYCEROL (GOLar)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
2g: GLYCEROL (GOLg)
2h: GLYCEROL (GOLh)
2i: GLYCEROL (GOLi)
2j: GLYCEROL (GOLj)
2k: GLYCEROL (GOLk)
2l: GLYCEROL (GOLl)
2m: GLYCEROL (GOLm)
2n: GLYCEROL (GOLn)
2o: GLYCEROL (GOLo)
2p: GLYCEROL (GOLp)
2q: GLYCEROL (GOLq)
2r: GLYCEROL (GOLr)
2s: GLYCEROL (GOLs)
2t: GLYCEROL (GOLt)
2u: GLYCEROL (GOLu)
2v: GLYCEROL (GOLv)
2w: GLYCEROL (GOLw)
2x: GLYCEROL (GOLx)
2y: GLYCEROL (GOLy)
2z: GLYCEROL (GOLz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
GOL
6
Ligand/Ion
GLYCEROL
[
close Hetero Component info
]
Sites
(23, 23)
Info
All Sites
01: AC2 (SOFTWARE)
02: AC3 (SOFTWARE)
03: BC5 (SOFTWARE)
04: BC7 (SOFTWARE)
05: CC6 (SOFTWARE)
06: CC7 (SOFTWARE)
07: DC1 (SOFTWARE)
08: EC5 (SOFTWARE)
09: EC6 (SOFTWARE)
10: EC7 (SOFTWARE)
11: EC8 (SOFTWARE)
12: EC9 (SOFTWARE)
13: FC1 (SOFTWARE)
14: GC5 (SOFTWARE)
15: GC6 (SOFTWARE)
16: GC7 (SOFTWARE)
17: GC8 (SOFTWARE)
18: GC9 (SOFTWARE)
19: HC3 (SOFTWARE)
20: IC2 (SOFTWARE)
21: IC3 (SOFTWARE)
22: IC4 (SOFTWARE)
23: IC5 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC2
SOFTWARE
GLN J:20 , GLN K:20 , GLN N:20 , GLN O:20
BINDING SITE FOR RESIDUE CL J 2002
02
AC3
SOFTWARE
GLN J:13 , GLN K:13 , GLN N:13 , GLN O:13
BINDING SITE FOR RESIDUE CL K 2003
03
BC5
SOFTWARE
HIS J:76
BINDING SITE FOR RESIDUE CL J 2016
04
BC7
SOFTWARE
HIS O:76
BINDING SITE FOR RESIDUE CL O 2018
05
CC6
SOFTWARE
HIS J:79
BINDING SITE FOR RESIDUE CL J 2026
06
CC7
SOFTWARE
HIS K:79 , VAL K:80
BINDING SITE FOR RESIDUE CL K 2027
07
DC1
SOFTWARE
HIS N:79
BINDING SITE FOR RESIDUE CL N 2030
08
EC5
SOFTWARE
HIS J:151 , GLN J:156 , ARG N:37 , GLN N:49 , GLU N:52 , HOH N:3128 , MET O:116 , GLU O:120
BINDING SITE FOR RESIDUE GOL N 3008
09
EC6
SOFTWARE
GLN I:49 , GLU I:52 , HIS K:151 , GLN K:156 , HOH K:3113 , HOH K:3121 , GLU L:120
BINDING SITE FOR RESIDUE GOL K 3009
10
EC7
SOFTWARE
GLU J:52 , ARG K:66 , HOH K:3117 , THR L:67 , ASP L:70 , LEU L:147 , HIS L:151 , HOH L:3036
BINDING SITE FOR RESIDUE GOL K 3010
11
EC8
SOFTWARE
ARG K:37 , GLN K:49 , GLU K:52 , HOH K:3065 , HIS M:151 , GLN M:156 , MET N:116 , GLU N:120
BINDING SITE FOR RESIDUE GOL K 3011
12
EC9
SOFTWARE
GLN L:49 , GLU L:52 , GLU M:120 , HIS N:151 , GLN N:156
BINDING SITE FOR RESIDUE GOL N 3012
13
FC1
SOFTWARE
MET J:116 , GLU J:120 , GLN O:49 , GLU O:52 , ASP O:70 , HIS O:151 , GLN O:156 , HOH O:3066
BINDING SITE FOR RESIDUE GOL O 3013
14
GC5
SOFTWARE
ARG J:66 , GLU O:52 , ASP O:70 , HIS O:151 , HOH O:3042
BINDING SITE FOR RESIDUE GOL O 3026
15
GC6
SOFTWARE
HIS K:76 , HOH K:3079 , ARG L:122 , TYR L:123 , HOH L:3046 , HOH L:3076
BINDING SITE FOR RESIDUE GOL L 3027
16
GC7
SOFTWARE
HOH I:3088 , THR K:67 , ASP K:70 , HOH K:3067 , ARG L:66 , HOH L:3105
BINDING SITE FOR RESIDUE GOL L 3028
17
GC8
SOFTWARE
ARG M:66 , THR N:67 , ASP N:70 , HIS N:151
BINDING SITE FOR RESIDUE GOL N 3029
18
GC9
SOFTWARE
ARG J:122 , TYR J:123 , THR J:124 , HIS J:125 , HOH J:3110 , HOH J:3150 , HIS O:76
BINDING SITE FOR RESIDUE GOL J 3030
19
HC3
SOFTWARE
HIS J:76 , HOH J:3088 , HOH J:3148 , ARG O:122 , TYR O:123 , HOH O:3028
BINDING SITE FOR RESIDUE GOL J 3033
20
IC2
SOFTWARE
ARG K:122 , TYR K:123 , THR K:124 , HIS K:125 , HOH K:3082 , HOH K:3142 , HOH K:3145 , HIS L:76
BINDING SITE FOR RESIDUE GOL K 3041
21
IC3
SOFTWARE
GLU M:73 , HIS M:76 , TYR M:157 , HOH M:3135 , ARG N:122 , TYR N:123 , HOH N:3086 , HOH N:3097
BINDING SITE FOR RESIDUE GOL M 3042
22
IC4
SOFTWARE
GLY M:121 , ARG M:122 , TYR M:123 , THR M:124 , HOH M:3128 , GLU N:73 , HIS N:76 , HOH N:3085
BINDING SITE FOR RESIDUE GOL M 3043
23
IC5
SOFTWARE
ARG K:51 , HOH K:3154 , THR M:67 , ASP M:70 , LEU M:147 , ARG N:66
BINDING SITE FOR RESIDUE GOL N 3044
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
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
(1, 16)
Info
All SCOP Domains
1a: SCOP_d1wpba_ (A:)
1b: SCOP_d1wpbb_ (B:)
1c: SCOP_d1wpbk_ (K:)
1d: SCOP_d1wpbl_ (L:)
1e: SCOP_d1wpbm_ (M:)
1f: SCOP_d1wpbn_ (N:)
1g: SCOP_d1wpbo_ (O:)
1h: SCOP_d1wpbp_ (P:)
1i: SCOP_d1wpbc_ (C:)
1j: SCOP_d1wpbd_ (D:)
1k: SCOP_d1wpbe_ (E:)
1l: SCOP_d1wpbf_ (F:)
1m: SCOP_d1wpbg_ (G:)
1n: SCOP_d1wpbh_ (H:)
1o: SCOP_d1wpbi_ (I:)
1p: SCOP_d1wpbj_ (J:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
YfbU-like
(1)
Superfamily
:
YfbU-like
(1)
Family
:
YfbU-like
(1)
Protein domain
:
Hypothetical protein YfbU
(1)
Escherichia coli [TaxId: 562]
(1)
1a
d1wpba_
A:
1b
d1wpbb_
B:
1c
d1wpbk_
K:
1d
d1wpbl_
L:
1e
d1wpbm_
M:
1f
d1wpbn_
N:
1g
d1wpbo_
O:
1h
d1wpbp_
P:
1i
d1wpbc_
C:
1j
d1wpbd_
D:
1k
d1wpbe_
E:
1l
d1wpbf_
F:
1m
d1wpbg_
G:
1n
d1wpbh_
H:
1o
d1wpbi_
I:
1p
d1wpbj_
J:
[
close SCOP info
]
CATH Domains
(2, 32)
Info
all CATH domains
1a: CATH_1wpbM01 (M:4-58)
1b: CATH_1wpbO01 (O:3-57)
1c: CATH_1wpbL01 (L:3-58)
1d: CATH_1wpbN01 (N:3-58)
1e: CATH_1wpbP01 (P:3-58)
1f: CATH_1wpbA01 (A:3-60)
1g: CATH_1wpbD01 (D:3-48)
1h: CATH_1wpbI01 (I:3-48)
1i: CATH_1wpbG01 (G:3-56)
1j: CATH_1wpbB01 (B:3-58)
1k: CATH_1wpbC01 (C:3-58)
1l: CATH_1wpbE01 (E:3-58)
1m: CATH_1wpbF01 (F:3-58)
1n: CATH_1wpbH01 (H:3-58)
1o: CATH_1wpbJ01 (J:3-58)
1p: CATH_1wpbK01 (K:3-58)
2a: CATH_1wpbO02 (O:58-170)
2b: CATH_1wpbG02 (G:57-170)
2c: CATH_1wpbM02 (M:59-170)
2d: CATH_1wpbN02 (N:59-170)
2e: CATH_1wpbP02 (P:59-170)
2f: CATH_1wpbA02 (A:61-170)
2g: CATH_1wpbD02 (D:49-170)
2h: CATH_1wpbI02 (I:49-170)
2i: CATH_1wpbB02 (B:59-170)
2j: CATH_1wpbC02 (C:59-170)
2k: CATH_1wpbE02 (E:59-170)
2l: CATH_1wpbF02 (F:59-170)
2m: CATH_1wpbH02 (H:59-170)
2n: CATH_1wpbJ02 (J:59-170)
2o: CATH_1wpbK02 (K:59-170)
2p: CATH_1wpbL02 (L:59-170)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Orthogonal Bundle
(10391)
Topology
:
Helix Hairpins
(718)
Homologous Superfamily
:
Helix hairpin bin
(1)
Escherichia coli. Organism_taxid: 562.
(1)
1a
1wpbM01
M:4-58
1b
1wpbO01
O:3-57
1c
1wpbL01
L:3-58
1d
1wpbN01
N:3-58
1e
1wpbP01
P:3-58
1f
1wpbA01
A:3-60
1g
1wpbD01
D:3-48
1h
1wpbI01
I:3-48
1i
1wpbG01
G:3-56
1j
1wpbB01
B:3-58
1k
1wpbC01
C:3-58
1l
1wpbE01
E:3-58
1m
1wpbF01
F:3-58
1n
1wpbH01
H:3-58
1o
1wpbJ01
J:3-58
1p
1wpbK01
K:3-58
Topology
:
yfbu gene product, domain 2
(1)
Homologous Superfamily
:
yfbu gene product, domain 2
(1)
Escherichia coli. Organism_taxid: 562.
(1)
2a
1wpbO02
O:58-170
2b
1wpbG02
G:57-170
2c
1wpbM02
M:59-170
2d
1wpbN02
N:59-170
2e
1wpbP02
P:59-170
2f
1wpbA02
A:61-170
2g
1wpbD02
D:49-170
2h
1wpbI02
I:49-170
2i
1wpbB02
B:59-170
2j
1wpbC02
C:59-170
2k
1wpbE02
E:59-170
2l
1wpbF02
F:59-170
2m
1wpbH02
H:59-170
2n
1wpbJ02
J:59-170
2o
1wpbK02
K:59-170
2p
1wpbL02
L:59-170
[
close CATH info
]
Pfam Domains
(1, 16)
Info
all PFAM domains
1a: PFAM_YfbU_1wpbP01 (P:7-170)
1b: PFAM_YfbU_1wpbP02 (P:7-170)
1c: PFAM_YfbU_1wpbP03 (P:7-170)
1d: PFAM_YfbU_1wpbP04 (P:7-170)
1e: PFAM_YfbU_1wpbP05 (P:7-170)
1f: PFAM_YfbU_1wpbP06 (P:7-170)
1g: PFAM_YfbU_1wpbP07 (P:7-170)
1h: PFAM_YfbU_1wpbP08 (P:7-170)
1i: PFAM_YfbU_1wpbP09 (P:7-170)
1j: PFAM_YfbU_1wpbP10 (P:7-170)
1k: PFAM_YfbU_1wpbP11 (P:7-170)
1l: PFAM_YfbU_1wpbP12 (P:7-170)
1m: PFAM_YfbU_1wpbP13 (P:7-170)
1n: PFAM_YfbU_1wpbP14 (P:7-170)
1o: PFAM_YfbU_1wpbP15 (P:7-170)
1p: PFAM_YfbU_1wpbP16 (P:7-170)
View:
Select:
Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: YfbU]
(1)
Family
:
YfbU
(1)
Escherichia coli (strain UTI89 / UPEC)
(1)
1a
YfbU-1wpbP01
P:7-170
1b
YfbU-1wpbP02
P:7-170
1c
YfbU-1wpbP03
P:7-170
1d
YfbU-1wpbP04
P:7-170
1e
YfbU-1wpbP05
P:7-170
1f
YfbU-1wpbP06
P:7-170
1g
YfbU-1wpbP07
P:7-170
1h
YfbU-1wpbP08
P:7-170
1i
YfbU-1wpbP09
P:7-170
1j
YfbU-1wpbP10
P:7-170
1k
YfbU-1wpbP11
P:7-170
1l
YfbU-1wpbP12
P:7-170
1m
YfbU-1wpbP13
P:7-170
1n
YfbU-1wpbP14
P:7-170
1o
YfbU-1wpbP15
P:7-170
1p
YfbU-1wpbP16
P:7-170
[
close Pfam info
]
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