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2UVF
Asym. Unit
Info
Asym.Unit (202 KB)
Biol.Unit 1 (99 KB)
Biol.Unit 2 (100 KB)
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(1)
Title
:
STRUCTURE OF YERSINIA ENTEROCOLITICA FAMILY 28 EXOPOLYGALACTURONASE IN COMPLEX WITH DIGALATURONIC ACID
Authors
:
D. W. Abbott, A. B. Boraston
Date
:
09 Mar 07 (Deposition) - 08 May 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Keywords
:
Gh28, Pectin, Cell Wall, Hydrolase, Periplasm, Yersinia Enterocolitica, Beta-Helix, Glycosidase, Exo-Activity
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. W. Abbott, A. B. Boraston
The Structural Basis For Exopolygalacturonase Activity In A Family 28 Glycoside Hydrolase.
J. Mol. Biol. V. 368 1215 2007
[
close entry info
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Hetero Components
(5, 35)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
2a: DIGALACTURONIC ACID (AD0a)
3a: NICKEL (II) ION (NIa)
3b: NICKEL (II) ION (NIb)
3c: NICKEL (II) ION (NIc)
3d: NICKEL (II) ION (NId)
3e: NICKEL (II) ION (NIe)
3f: NICKEL (II) ION (NIf)
3g: NICKEL (II) ION (NIg)
3h: NICKEL (II) ION (NIh)
3i: NICKEL (II) ION (NIi)
3j: NICKEL (II) ION (NIj)
4a: DI(HYDROXYETHYL)ETHER (PEGa)
4b: DI(HYDROXYETHYL)ETHER (PEGb)
5a: SULFATE ION (SO4a)
5b: SULFATE ION (SO4b)
5c: SULFATE ION (SO4c)
5d: SULFATE ION (SO4d)
5e: SULFATE ION (SO4e)
5f: SULFATE ION (SO4f)
5g: SULFATE ION (SO4g)
5h: SULFATE ION (SO4h)
5i: SULFATE ION (SO4i)
5j: SULFATE ION (SO4j)
5k: SULFATE ION (SO4k)
5l: SULFATE ION (SO4l)
5m: SULFATE ION (SO4m)
5n: SULFATE ION (SO4n)
5o: SULFATE ION (SO4o)
5p: SULFATE ION (SO4p)
5q: SULFATE ION (SO4q)
5r: SULFATE ION (SO4r)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
4
Ligand/Ion
ACETATE ION
2
AD0
1
Ligand/Ion
DIGALACTURONIC ACID
3
NI
10
Ligand/Ion
NICKEL (II) ION
4
PEG
2
Ligand/Ion
DI(HYDROXYETHYL)ETHER
5
SO4
18
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(35, 35)
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)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
31: DC4 (SOFTWARE)
32: DC5 (SOFTWARE)
33: DC6 (SOFTWARE)
34: DC7 (SOFTWARE)
35: DC8 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:231 , PRO A:250 , ASN A:251 , ARG A:337
BINDING SITE FOR RESIDUE SO4 A1607
02
AC2
SOFTWARE
ARG A:488 , ASP A:530 , ASN A:531
BINDING SITE FOR RESIDUE SO4 A1608
03
AC3
SOFTWARE
GLY A:587 , ASP A:588 , THR A:589 , HIS A:592
BINDING SITE FOR RESIDUE SO4 A1609
04
AC4
SOFTWARE
TYR A:94 , ARG A:288 , ILE A:371 , GLN A:373 , PHE A:397
BINDING SITE FOR RESIDUE SO4 A1610
05
AC5
SOFTWARE
ASN A:87 , PHE A:88 , SER A:89 , PRO A:90 , HOH A:2021
BINDING SITE FOR RESIDUE SO4 A1611
06
AC6
SOFTWARE
ASN A:378 , ASN A:379 , AD0 A:1617
BINDING SITE FOR RESIDUE SO4 A1612
07
AC7
SOFTWARE
HIS A:97 , HOH A:2025 , HOH A:2086 , HIS B:97 , HOH B:2157
BINDING SITE FOR RESIDUE NI A1613
08
AC8
SOFTWARE
ASP A:376 , GLY A:401 , HIS A:435 , HOH A:2125 , HOH A:2134 , HOH A:2135
BINDING SITE FOR RESIDUE NI A1614
09
AC9
SOFTWARE
ASP A:270 , ARG A:276
BINDING SITE FOR RESIDUE NI A1615
10
BC1
SOFTWARE
HIS A:435 , AD0 A:1617
BINDING SITE FOR RESIDUE NI A1616
11
BC2
SOFTWARE
ASP B:402 , HIS B:435 , HOH B:2293 , HOH B:2294
BINDING SITE FOR RESIDUE SO4 B1608
12
BC3
SOFTWARE
ARG B:488 , ASP B:530 , ASN B:531
BINDING SITE FOR RESIDUE SO4 B1609
13
BC4
SOFTWARE
TYR B:230 , ARG B:231 , PRO B:250 , ARG B:337 , HOH B:2295
BINDING SITE FOR RESIDUE SO4 B1610
14
BC5
SOFTWARE
LYS B:492
BINDING SITE FOR RESIDUE SO4 B1611
15
BC6
SOFTWARE
ALA B:424 , ASP B:450 , ILE B:451 , LEU B:452 , PEG B:1630
BINDING SITE FOR RESIDUE SO4 B1612
16
BC7
SOFTWARE
ASP B:249 , PRO B:250 , ASN B:251
BINDING SITE FOR RESIDUE SO4 B1613
17
BC8
SOFTWARE
GLU B:123 , THR B:124 , SER B:125 , LYS B:149
BINDING SITE FOR RESIDUE SO4 B1614
18
BC9
SOFTWARE
GLN B:39 , GLN B:40 , LYS B:144 , HOH B:2002
BINDING SITE FOR RESIDUE SO4 B1615
19
CC1
SOFTWARE
THR B:583 , GLU B:584 , HOH B:2297
BINDING SITE FOR RESIDUE SO4 B1616
20
CC2
SOFTWARE
PRO B:566 , GLY B:587 , ASP B:588 , THR B:589 , HIS B:592 , HOH B:2298
BINDING SITE FOR RESIDUE SO4 B1617
21
CC3
SOFTWARE
LYS B:58 , ARG B:483 , PEG B:1630
BINDING SITE FOR RESIDUE SO4 B1618
22
CC4
SOFTWARE
ALA B:47 , TYR B:48 , ASP B:49 , SER B:52 , VAL B:54 , TYR B:343 , HOH B:2299
BINDING SITE FOR RESIDUE SO4 B1619
23
CC5
SOFTWARE
ASP B:376 , GLY B:401 , HIS B:435 , HOH B:2218 , HOH B:2219
BINDING SITE FOR RESIDUE NI B1620
24
CC6
SOFTWARE
PRO B:255 , HIS B:363 , GLN B:389 , GLU B:419
BINDING SITE FOR RESIDUE NI B1621
25
CC7
SOFTWARE
HIS B:302 , GLU B:303
BINDING SITE FOR RESIDUE NI B1622
26
CC8
SOFTWARE
ASP B:270
BINDING SITE FOR RESIDUE NI B1623
27
CC9
SOFTWARE
ASP B:49 , ARG B:262
BINDING SITE FOR RESIDUE NI B1624
28
DC1
SOFTWARE
ASP B:83
BINDING SITE FOR RESIDUE NI B1625
29
DC2
SOFTWARE
HIS B:443 , ILE B:508 , TYR B:510
BINDING SITE FOR RESIDUE ACT B1626
30
DC3
SOFTWARE
ASP B:96 , TYR B:99 , ILE B:110 , HOH B:2300
BINDING SITE FOR RESIDUE ACT B1627
31
DC4
SOFTWARE
ASN B:406 , GLY B:441 , HOH B:2301
BINDING SITE FOR RESIDUE ACT B1628
32
DC5
SOFTWARE
HIS B:97 , TYR B:430 , TYR B:459 , HOH B:2302
BINDING SITE FOR RESIDUE ACT B1629
33
DC6
SOFTWARE
LEU A:232 , ARG A:240 , HIS A:355 , ASN A:379 , ASP A:381 , GLU A:384 , ASP A:402 , ASN A:406 , GLY A:441 , SER A:442 , HIS A:443 , LYS A:468 , SO4 A:1612 , NI A:1616 , HOH A:2182 , HOH A:2183 , HOH A:2184
BINDING SITE FOR RESIDUE AD0 A1617
34
DC7
SOFTWARE
ILE B:451 , LEU B:452 , ASN B:479 , THR B:481 , ARG B:483 , SO4 B:1612 , SO4 B:1618 , HOH B:2303
BINDING SITE FOR RESIDUE PEG B1630
35
DC8
SOFTWARE
TRP B:550 , ARG B:573 , LYS B:597
BINDING SITE FOR RESIDUE PEG B1631
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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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.
SCOP Domains
(0, 0)
Info
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CATH Domains
(0, 0)
Info
all CATH domains
View:
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Sorry, no Info available
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Pfam Domains
(3, 6)
Info
all PFAM domains
1a: PFAM_fn3_2uvfB01 (B:36-143)
1b: PFAM_fn3_2uvfB02 (B:36-143)
2a: PFAM_Glyco_hydro_28_2uvfB03 (B:254-518)
2b: PFAM_Glyco_hydro_28_2uvfB04 (B:254-518)
3a: PFAM_Pectate_lyase_3_2uvfB05 (B:156-328)
3b: PFAM_Pectate_lyase_3_2uvfB06 (B:156-328)
View:
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Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
E-set
(290)
Family
:
fn3
(66)
Yersinia enterocolitica
(1)
1a
fn3-2uvfB01
B:36-143
1b
fn3-2uvfB02
B:36-143
Clan
:
Pec_lyase
(42)
Family
:
Glyco_hydro_28
(6)
Yersinia enterocolitica
(1)
2a
Glyco_hydro_28-2uvfB03
B:254-518
2b
Glyco_hydro_28-2uvfB04
B:254-518
Family
:
Pectate_lyase_3
(5)
Yersinia enterocolitica
(1)
3a
Pectate_lyase_3-2uvfB05
B:156-328
3b
Pectate_lyase_3-2uvfB06
B:156-328
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