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3U7B
Asym. Unit
Info
Asym.Unit (305 KB)
Biol.Unit 1 (64 KB)
Biol.Unit 2 (65 KB)
Biol.Unit 3 (64 KB)
Biol.Unit 4 (65 KB)
Biol.Unit 5 (63 KB)
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(1)
Title
:
A NEW CRYSTAL STRUCTURE OF A FUSARIUM OXYSPORUM GH10 XYLANASE REVEALS THE PRESENCE OF AN EXTENDED LOOP ON TOP OF THE CATALYTIC CLEFT
Authors
:
M. Dimarogona, E. Topakas, P. Christakopoulos, E. D. Chrysina
Date
:
13 Oct 11 (Deposition) - 18 Jul 12 (Release) - 18 Jul 12 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.94
Chains
:
Asym. Unit : A,B,C,D,E
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Biol. Unit 5: E (1x)
Keywords
:
Tim Barrel, Xylanase, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Dimarogona, E. Topakas, P. Christakopoulos, E. D. Chrysina
The Structure Of A Gh10 Xylanase From Fusarium Oxysporum Reveals The Presence Of An Extended Loop On Top Of The Catalytic Cleft.
Acta Crystallogr. , Sect. D V. 68 735 2012
[
close entry info
]
Hetero Components
(4, 45)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
1d: BETA-D-MANNOSE (BMAd)
1e: BETA-D-MANNOSE (BMAe)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
2k: 1,2-ETHANEDIOL (EDOk)
2l: 1,2-ETHANEDIOL (EDOl)
2m: 1,2-ETHANEDIOL (EDOm)
2n: 1,2-ETHANEDIOL (EDOn)
2o: 1,2-ETHANEDIOL (EDOo)
2p: 1,2-ETHANEDIOL (EDOp)
2q: 1,2-ETHANEDIOL (EDOq)
2r: 1,2-ETHANEDIOL (EDOr)
2s: 1,2-ETHANEDIOL (EDOs)
2t: 1,2-ETHANEDIOL (EDOt)
2u: 1,2-ETHANEDIOL (EDOu)
2v: 1,2-ETHANEDIOL (EDOv)
2w: 1,2-ETHANEDIOL (EDOw)
2x: 1,2-ETHANEDIOL (EDOx)
2y: 1,2-ETHANEDIOL (EDOy)
2z: 1,2-ETHANEDIOL (EDOz)
3a: ALPHA-D-MANNOSE (MANa)
3b: ALPHA-D-MANNOSE (MANb)
3c: ALPHA-D-MANNOSE (MANc)
3d: ALPHA-D-MANNOSE (MANd)
4a: N-ACETYL-D-GLUCOSAMINE (NAGa)
4b: N-ACETYL-D-GLUCOSAMINE (NAGb)
4c: N-ACETYL-D-GLUCOSAMINE (NAGc)
4d: N-ACETYL-D-GLUCOSAMINE (NAGd)
4e: N-ACETYL-D-GLUCOSAMINE (NAGe)
4f: N-ACETYL-D-GLUCOSAMINE (NAGf)
4g: N-ACETYL-D-GLUCOSAMINE (NAGg)
4h: N-ACETYL-D-GLUCOSAMINE (NAGh)
4i: N-ACETYL-D-GLUCOSAMINE (NAGi)
4j: N-ACETYL-D-GLUCOSAMINE (NAGj)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
5
Ligand/Ion
BETA-D-MANNOSE
2
EDO
26
Ligand/Ion
1,2-ETHANEDIOL
3
MAN
4
Ligand/Ion
ALPHA-D-MANNOSE
4
NAG
10
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
[
close Hetero Component info
]
Sites
(45, 45)
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)
36: DC9 (SOFTWARE)
37: EC1 (SOFTWARE)
38: EC2 (SOFTWARE)
39: EC3 (SOFTWARE)
40: EC4 (SOFTWARE)
41: EC5 (SOFTWARE)
42: EC6 (SOFTWARE)
43: EC7 (SOFTWARE)
44: EC8 (SOFTWARE)
45: EC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PRO A:215 , THR A:216 , PHE A:298 , PRO A:299 , GLU A:301 , HOH A:424 , GLU D:51 , ALA D:52 , ASN D:61
BINDING SITE FOR RESIDUE EDO A 400
02
AC2
SOFTWARE
TYR A:174 , HIS A:208 , ARG A:249 , TRP A:293 , HOH A:1336
BINDING SITE FOR RESIDUE EDO A 401
03
AC3
SOFTWARE
ASN A:175 , TYR A:178 , GLN A:217 , THR A:219 , HOH A:1638
BINDING SITE FOR RESIDUE EDO A 402
04
AC4
SOFTWARE
ASN A:101 , GLN A:105 , ILE A:148 , NAG A:509 , HOH A:1574 , HOH A:1634
BINDING SITE FOR RESIDUE NAG A 508
05
AC5
SOFTWARE
ARG A:158 , TYR A:196 , NAG A:508 , BMA A:600
BINDING SITE FOR RESIDUE NAG A 509
06
AC6
SOFTWARE
SER A:195 , NAG A:509
BINDING SITE FOR RESIDUE BMA A 600
07
AC7
SOFTWARE
THR A:252 , PRO A:295 , PRO A:299 , GLY A:300 , GLU A:301 , HOH A:467 , HOH A:1323 , HOH A:1660
BINDING SITE FOR RESIDUE EDO A 409
08
AC8
SOFTWARE
ASP A:289 , SER A:303 , ASP A:309 , HOH A:332 , HOH A:387 , HOH A:455 , HOH A:467
BINDING SITE FOR RESIDUE EDO A 413
09
AC9
SOFTWARE
VAL A:23 , GLN A:67 , HOH A:852 , HOH A:1334
BINDING SITE FOR RESIDUE EDO A 403
10
BC1
SOFTWARE
GLN A:54 , ARG A:57 , GLY A:58 , ASP A:110 , HOH A:419
BINDING SITE FOR RESIDUE EDO A 404
11
BC2
SOFTWARE
PRO B:215 , THR B:216 , PHE B:298 , PRO B:299 , GLU B:301 , HOH B:1493 , GLU C:51 , ALA C:52
BINDING SITE FOR RESIDUE EDO B 400
12
BC3
SOFTWARE
VAL B:23 , GLN B:67 , HOH B:916
BINDING SITE FOR RESIDUE EDO B 403
13
BC4
SOFTWARE
TYR B:174 , HIS B:208 , ARG B:249 , TRP B:293 , HOH B:975
BINDING SITE FOR RESIDUE EDO B 401
14
BC5
SOFTWARE
GLY B:121 , CYS B:123 , THR B:166 , HOH B:920 , HOH B:1527
BINDING SITE FOR RESIDUE EDO B 404
15
BC6
SOFTWARE
ASN B:175 , TYR B:178 , GLN B:217 , THR B:219 , HOH B:927
BINDING SITE FOR RESIDUE EDO B 402
16
BC7
SOFTWARE
ASN B:101 , GLN B:105 , ILE B:148 , NAG B:509 , HOH B:1893 , HOH B:1897
BINDING SITE FOR RESIDUE NAG B 508
17
BC8
SOFTWARE
ARG B:158 , TYR B:196 , NAG B:508 , BMA B:600 , HOH B:1576
BINDING SITE FOR RESIDUE NAG B 509
18
BC9
SOFTWARE
SER B:195 , TYR B:196 , NAG B:509 , MAN B:601 , HOH B:1892
BINDING SITE FOR RESIDUE BMA B 600
19
CC1
SOFTWARE
BMA B:600 , MAN B:602
BINDING SITE FOR RESIDUE MAN B 601
20
CC2
SOFTWARE
MAN B:601 , ASP D:275 , HOH D:1398 , HOH D:1663
BINDING SITE FOR RESIDUE MAN B 602
21
CC3
SOFTWARE
GLU B:78 , HOH B:914
BINDING SITE FOR RESIDUE EDO B 405
22
CC4
SOFTWARE
GLY B:13 , LYS B:14 , LYS B:277 , HOH B:1365 , HOH B:1814
BINDING SITE FOR RESIDUE EDO B 407
23
CC5
SOFTWARE
GLU B:51 , ALA B:52 , PRO C:215 , THR C:216 , PHE C:298 , PRO C:299 , GLU C:301 , HOH C:383
BINDING SITE FOR RESIDUE EDO C 400
24
CC6
SOFTWARE
HIS C:208 , ARG C:249
BINDING SITE FOR RESIDUE EDO C 401
25
CC7
SOFTWARE
ASP C:289 , SER C:303 , ASP C:309 , HOH C:352 , HOH C:374 , HOH C:382 , HOH C:390
BINDING SITE FOR RESIDUE EDO C 406
26
CC8
SOFTWARE
ASN C:101 , GLN C:102 , GLN C:105 , ILE C:148 , NAG C:509
BINDING SITE FOR RESIDUE NAG C 508
27
CC9
SOFTWARE
ARG C:158 , TYR C:196 , NAG C:508 , BMA C:600 , HOH C:1568
BINDING SITE FOR RESIDUE NAG C 509
28
DC1
SOFTWARE
SER C:195 , NAG C:509 , HOH C:1447
BINDING SITE FOR RESIDUE BMA C 600
29
DC2
SOFTWARE
TYR C:178 , GLN C:217 , THR C:219 , HOH C:1385
BINDING SITE FOR RESIDUE EDO C 411
30
DC3
SOFTWARE
ASP C:66 , ARG C:118 , LYS C:122 , HOH C:1369 , HOH C:1452
BINDING SITE FOR RESIDUE EDO C 412
31
DC4
SOFTWARE
GLY C:121 , THR C:124 , HOH C:367
BINDING SITE FOR RESIDUE EDO C 414
32
DC5
SOFTWARE
TYR D:174 , HIS D:208 , ARG D:249 , TRP D:293 , HOH D:1177
BINDING SITE FOR RESIDUE EDO D 401
33
DC6
SOFTWARE
ASN D:175 , TYR D:178 , GLN D:217 , THR D:219 , HOH D:1888
BINDING SITE FOR RESIDUE EDO D 402
34
DC7
SOFTWARE
ASN D:101 , GLN D:105 , ILE D:148 , NAG D:509 , HOH D:1834
BINDING SITE FOR RESIDUE NAG D 508
35
DC8
SOFTWARE
ARG D:158 , TYR D:196 , NAG D:508 , BMA D:600 , HOH D:1577
BINDING SITE FOR RESIDUE NAG D 509
36
DC9
SOFTWARE
NAG D:509 , MAN D:601 , HOH D:1578
BINDING SITE FOR RESIDUE BMA D 600
37
EC1
SOFTWARE
SER D:195 , TYR D:196 , BMA D:600
BINDING SITE FOR RESIDUE MAN D 601
38
EC2
SOFTWARE
GLU A:51 , ALA A:52 , THR D:216 , PHE D:298 , PRO D:299 , GLU D:301 , HOH D:331
BINDING SITE FOR RESIDUE EDO D 408
39
EC3
SOFTWARE
ASP E:289 , SER E:303 , ASP E:309 , HOH E:480 , HOH E:717 , HOH E:1488
BINDING SITE FOR RESIDUE EDO E 406
40
EC4
SOFTWARE
THR D:318 , ASN D:322 , ASN E:100 , ASN E:101 , HOH E:775 , HOH E:776 , HOH E:1176
BINDING SITE FOR RESIDUE EDO E 407
41
EC5
SOFTWARE
GLN D:260 , HOH D:1010 , ASN E:101 , GLN E:105 , VAL E:147 , ILE E:148 , NAG E:509 , HOH E:979
BINDING SITE FOR RESIDUE NAG E 508
42
EC6
SOFTWARE
ARG E:158 , TYR E:196 , NAG E:508 , BMA E:600 , HOH E:1511
BINDING SITE FOR RESIDUE NAG E 509
43
EC7
SOFTWARE
TYR E:196 , NAG E:509 , MAN E:601 , HOH E:1215
BINDING SITE FOR RESIDUE BMA E 600
44
EC8
SOFTWARE
SER E:195 , TYR E:196 , BMA E:600 , HOH E:1854
BINDING SITE FOR RESIDUE MAN E 601
45
EC9
SOFTWARE
LYS B:226 , HOH B:650 , PRO E:295 , PRO E:299 , GLY E:300 , HOH E:610 , HOH E:623
BINDING SITE FOR RESIDUE EDO E 410
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(1, 5)
Info
All PROSITE Patterns/Profiles
1: GH10_2 (A:1-323,B:1-323,C:1-323,D:1-323,E:...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GH10_2
PS51760
Glycosyl hydrolases family 10 (GH10) domain profile.
XYNA_FUSO4
1-323
5
A:1-323
B:1-323
C:1-323
D:1-323
E:1-323
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
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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.
SCOP Domains
(1, 5)
Info
All SCOP Domains
1a: SCOP_d3u7ba_ (A:)
1b: SCOP_d3u7bb_ (B:)
1c: SCOP_d3u7bc_ (C:)
1d: SCOP_d3u7bd_ (D:)
1e: SCOP_d3u7be_ (E:)
View:
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(
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(
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(
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(
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Superfamilies
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(
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
(Trans)glycosidases
(1191)
Family
:
automated matches
(180)
Protein domain
:
automated matches
(180)
Fungus (Fusarium oxysporum) [TaxId: 5507]
(1)
1a
d3u7ba_
A:
1b
d3u7bb_
B:
1c
d3u7bc_
C:
1d
d3u7bd_
D:
1e
d3u7be_
E:
[
close SCOP info
]
CATH Domains
(0, 0)
Info
all CATH domains
View:
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Label:
Sorry, no Info available
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Chain C
Chain D
Chain E
Asymmetric Unit 1
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select chains 'A' and 'C'
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select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
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Asym.Unit (305 KB)
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