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1YLO
Biol. Unit 1
Info
Asym.Unit (349 KB)
Biol.Unit 1 (662 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PROTEIN OF UNKNOWN FUNCTION (POSSIBLE AMINOPEPTIDASE) S2589 FROM SHIGELLA FLEXNERI 2A STR. 2457T
Authors
:
B. P. Nocek, Midwest Center For Structural Genomics (Mcsg)
Date
:
19 Jan 05 (Deposition) - 08 Mar 05 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.15
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (2x)
Keywords
:
Structural Genomics, Mcsg, Hypothetical Protein S2589, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Unknown Function
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
B. P. Nocek, A. Binkowski, H. Li, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Crystal Structure Of Hypothetical Protein From Shigella Flexneri 2A.
To Be Published
[
close entry info
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Hetero Components
(1, 144)
Info
All Hetero Components
1a: SELENOMETHIONINE (MSEa)
1aa: SELENOMETHIONINE (MSEaa)
1ab: SELENOMETHIONINE (MSEab)
1ac: SELENOMETHIONINE (MSEac)
1ad: SELENOMETHIONINE (MSEad)
1ae: SELENOMETHIONINE (MSEae)
1af: SELENOMETHIONINE (MSEaf)
1ag: SELENOMETHIONINE (MSEag)
1ah: SELENOMETHIONINE (MSEah)
1ai: SELENOMETHIONINE (MSEai)
1aj: SELENOMETHIONINE (MSEaj)
1ak: SELENOMETHIONINE (MSEak)
1al: SELENOMETHIONINE (MSEal)
1am: SELENOMETHIONINE (MSEam)
1an: SELENOMETHIONINE (MSEan)
1ao: SELENOMETHIONINE (MSEao)
1ap: SELENOMETHIONINE (MSEap)
1aq: SELENOMETHIONINE (MSEaq)
1ar: SELENOMETHIONINE (MSEar)
1as: SELENOMETHIONINE (MSEas)
1at: SELENOMETHIONINE (MSEat)
1au: SELENOMETHIONINE (MSEau)
1av: SELENOMETHIONINE (MSEav)
1aw: SELENOMETHIONINE (MSEaw)
1ax: SELENOMETHIONINE (MSEax)
1ay: SELENOMETHIONINE (MSEay)
1az: SELENOMETHIONINE (MSEaz)
1b: SELENOMETHIONINE (MSEb)
1ba: SELENOMETHIONINE (MSEba)
1bb: SELENOMETHIONINE (MSEbb)
1bc: SELENOMETHIONINE (MSEbc)
1bd: SELENOMETHIONINE (MSEbd)
1be: SELENOMETHIONINE (MSEbe)
1bf: SELENOMETHIONINE (MSEbf)
1bg: SELENOMETHIONINE (MSEbg)
1bh: SELENOMETHIONINE (MSEbh)
1bi: SELENOMETHIONINE (MSEbi)
1bj: SELENOMETHIONINE (MSEbj)
1bk: SELENOMETHIONINE (MSEbk)
1bl: SELENOMETHIONINE (MSEbl)
1bm: SELENOMETHIONINE (MSEbm)
1bn: SELENOMETHIONINE (MSEbn)
1bo: SELENOMETHIONINE (MSEbo)
1bp: SELENOMETHIONINE (MSEbp)
1bq: SELENOMETHIONINE (MSEbq)
1br: SELENOMETHIONINE (MSEbr)
1bs: SELENOMETHIONINE (MSEbs)
1bt: SELENOMETHIONINE (MSEbt)
1c: SELENOMETHIONINE (MSEc)
1d: SELENOMETHIONINE (MSEd)
1e: SELENOMETHIONINE (MSEe)
1f: SELENOMETHIONINE (MSEf)
1g: SELENOMETHIONINE (MSEg)
1h: SELENOMETHIONINE (MSEh)
1i: SELENOMETHIONINE (MSEi)
1j: SELENOMETHIONINE (MSEj)
1k: SELENOMETHIONINE (MSEk)
1l: SELENOMETHIONINE (MSEl)
1m: SELENOMETHIONINE (MSEm)
1n: SELENOMETHIONINE (MSEn)
1o: SELENOMETHIONINE (MSEo)
1p: SELENOMETHIONINE (MSEp)
1q: SELENOMETHIONINE (MSEq)
1r: SELENOMETHIONINE (MSEr)
1s: SELENOMETHIONINE (MSEs)
1t: SELENOMETHIONINE (MSEt)
1u: SELENOMETHIONINE (MSEu)
1v: SELENOMETHIONINE (MSEv)
1w: SELENOMETHIONINE (MSEw)
1x: SELENOMETHIONINE (MSEx)
1y: SELENOMETHIONINE (MSEy)
1z: SELENOMETHIONINE (MSEz)
2a: ZINC ION (ZNa)
2b: ZINC ION (ZNb)
2c: ZINC ION (ZNc)
2d: ZINC ION (ZNd)
2e: ZINC ION (ZNe)
2f: ZINC ION (ZNf)
2g: ZINC ION (ZNg)
2h: ZINC ION (ZNh)
2i: ZINC ION (ZNi)
2j: ZINC ION (ZNj)
2k: ZINC ION (ZNk)
2l: ZINC ION (ZNl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MSE
144
Mod. Amino Acid
SELENOMETHIONINE
2
ZN
-1
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(12, 12)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:62 , ASP A:166 , ASP A:221 , ZN A:1447 , HOH A:1448
BINDING SITE FOR RESIDUE ZN A 1446
02
AC2
SOFTWARE
ASP A:166 , GLU A:199 , HIS A:308 , ZN A:1446 , HOH A:1448
BINDING SITE FOR RESIDUE ZN A 1447
03
AC3
SOFTWARE
HIS B:62 , ASP B:166 , ASP B:221 , ZN B:1547 , HOH B:1570 , HOH B:1605
BINDING SITE FOR RESIDUE ZN B 1546
04
AC4
SOFTWARE
ASP B:166 , GLU B:199 , HIS B:308 , ZN B:1546 , HOH B:1570
BINDING SITE FOR RESIDUE ZN B 1547
05
AC5
SOFTWARE
HIS C:62 , ASP C:166 , ASP C:221 , ZN C:1647 , HOH C:1690
BINDING SITE FOR RESIDUE ZN C 1646
06
AC6
SOFTWARE
ASP C:166 , GLU C:199 , HIS C:308 , ZN C:1646 , HOH C:1690
BINDING SITE FOR RESIDUE ZN C 1647
07
AC7
SOFTWARE
HIS D:62 , ASP D:166 , ASP D:221 , ZN D:1747 , HOH D:1820
BINDING SITE FOR RESIDUE ZN D 1746
08
AC8
SOFTWARE
ASP D:166 , GLU D:199 , HIS D:308 , ZN D:1746 , HOH D:1820
BINDING SITE FOR RESIDUE ZN D 1747
09
AC9
SOFTWARE
HIS E:62 , ASP E:166 , GLU E:198 , ASP E:221 , ZN E:1847 , HOH E:1852 , HOH E:1931
BINDING SITE FOR RESIDUE ZN E 1846
10
BC1
SOFTWARE
ASP E:166 , GLU E:199 , HIS E:308 , ZN E:1846 , HOH E:1852
BINDING SITE FOR RESIDUE ZN E 1847
11
BC2
SOFTWARE
HIS F:62 , ASP F:166 , GLU F:198 , ASP F:221 , ZN F:1947 , HOH F:1948
BINDING SITE FOR RESIDUE ZN F 1946
12
BC3
SOFTWARE
ASP F:166 , GLU F:199 , HIS F:308 , ZN F:1946 , HOH F:1948
BINDING SITE FOR RESIDUE ZN F 1947
[
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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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PROSITE Patterns/Profiles
(, 0)
Info
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;
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End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
All Exons
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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
(2, 12)
Info
All SCOP Domains
1a: SCOP_d1yloa1 (A:67-147)
1b: SCOP_d1ylob1 (B:67-147)
1c: SCOP_d1yloc1 (C:67-147)
1d: SCOP_d1ylod1 (D:67-147)
1e: SCOP_d1yloe1 (E:67-147)
1f: SCOP_d1ylof1 (F:67-147)
2a: SCOP_d1yloa2 (A:1-66,A:148-345)
2b: SCOP_d1ylob2 (B:0-66,B:148-345)
2c: SCOP_d1yloc2 (C:0-66,C:148-345)
2d: SCOP_d1ylod2 (D:0-66,D:148-345)
2e: SCOP_d1yloe2 (E:0-66,E:148-345)
2f: SCOP_d1ylof2 (F:0-66,F:148-345)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Domain of alpha and beta subunits of F1 ATP synthase-like
(89)
Superfamily
:
Aminopeptidase/glucanase lid domain
(9)
Family
:
Aminopeptidase/glucanase lid domain
(9)
Protein domain
:
Aminopeptidase YpdE
(1)
Shigella flexneri [TaxId: 623]
(1)
1a
d1yloa1
A:67-147
1b
d1ylob1
B:67-147
1c
d1yloc1
C:67-147
1d
d1ylod1
D:67-147
1e
d1yloe1
E:67-147
1f
d1ylof1
F:67-147
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Phosphorylase/hydrolase-like
(558)
Superfamily
:
Zn-dependent exopeptidases
(214)
Family
:
Bacterial dinuclear zinc exopeptidases
(55)
Protein domain
:
Aminopeptidase YpdE
(1)
Shigella flexneri [TaxId: 623]
(1)
2a
d1yloa2
A:1-66,A:148-345
2b
d1ylob2
B:0-66,B:148-345
2c
d1yloc2
C:0-66,C:148-345
2d
d1ylod2
D:0-66,D:148-345
2e
d1yloe2
E:0-66,E:148-345
2f
d1ylof2
F:0-66,F:148-345
[
close SCOP info
]
CATH Domains
(2, 12)
Info
all CATH domains
1a: CATH_1yloA01 (A:0-66,A:149-345)
1b: CATH_1yloB01 (B:0-66,B:149-345)
1c: CATH_1yloC01 (C:0-66,C:149-345)
1d: CATH_1yloD01 (D:0-66,D:149-345)
1e: CATH_1yloF01 (F:0-66,F:149-345)
1f: CATH_1yloE01 (E:0-66,E:151-345)
2a: CATH_1yloA02 (A:67-148)
2b: CATH_1yloB02 (B:67-148)
2c: CATH_1yloC02 (C:67-148)
2d: CATH_1yloD02 (D:67-148)
2e: CATH_1yloF02 (F:67-148)
2f: CATH_1yloE02 (E:67-150)
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(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Aminopeptidase
(284)
Homologous Superfamily
:
Zn peptidases
(137)
2457t (Shigella flexneri 2a str)
(1)
1a
1yloA01
A:0-66,A:149-345
1b
1yloB01
B:0-66,B:149-345
1c
1yloC01
C:0-66,C:149-345
1d
1yloD01
D:0-66,D:149-345
1e
1yloF01
F:0-66,F:149-345
1f
1yloE01
E:0-66,E:151-345
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
Elongation Factor Tu (Ef-tu); domain 3
(323)
Homologous Superfamily
:
Aminopeptidase/glucanase lid domain; domain 2
(14)
2457t (Shigella flexneri 2a str)
(1)
2a
1yloA02
A:67-148
2b
1yloB02
B:67-148
2c
1yloC02
C:67-148
2d
1yloD02
D:67-148
2e
1yloF02
F:67-148
2f
1yloE02
E:67-150
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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