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4GDI
Biol. Unit 1
Info
Asym.Unit (1.1 MB)
Biol.Unit 1 (746 KB)
Biol.Unit 2 (748 KB)
Biol.Unit 3 (772 KB)
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(1)
Title
:
A SUBTYPE N10 NEURAMINIDASE-LIKE PROTEIN OF A/LITTLE YELLOW-SHOULDERED BAT/GUATEMALA/164/2009
Authors
:
X. Zhu, I. A. Wilson
Date
:
31 Jul 12 (Deposition) - 26 Sep 12 (Release) - 17 Dec 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.95
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E (4x)
Biol. Unit 3: F (4x)
Keywords
:
Influenza Virus, Neuraminidase-Like, N10, Beta-Propeller, Ectodomain, Viral Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
X. Zhu, H. Yang, Z. Guo, W. Yu, P. J. Carney, Y. Li, L. M. Chen, J. C. Paulson, R. O. Donis, S. Tong, J. Stevens, I. A. Wilson
Crystal Structures Of Two Subtype N10 Neuraminidase-Like Proteins From Bat Influenza A Viruses Reveal A Diverged Putative Active Site.
Proc. Natl. Acad. Sci. Usa V. 109 18903 2012
[
close entry info
]
Hetero Components
(7, 45)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
2e: CALCIUM ION (CAe)
2f: CALCIUM ION (CAf)
2g: CALCIUM ION (CAg)
2h: CALCIUM ION (CAh)
2i: CALCIUM ION (CAi)
2j: CALCIUM ION (CAj)
2k: CALCIUM ION (CAk)
3a: ALPHA-L-FUCOSE (FUCa)
3b: ALPHA-L-FUCOSE (FUCb)
3c: ALPHA-L-FUCOSE (FUCc)
3d: ALPHA-L-FUCOSE (FUCd)
3e: ALPHA-L-FUCOSE (FUCe)
3f: ALPHA-L-FUCOSE (FUCf)
3g: ALPHA-L-FUCOSE (FUCg)
4a: BETA-L-FUCOSE (FULa)
4b: BETA-L-FUCOSE (FULb)
4c: BETA-L-FUCOSE (FULc)
4d: BETA-L-FUCOSE (FULd)
4e: BETA-L-FUCOSE (FULe)
4f: BETA-L-FUCOSE (FULf)
5a: GLYCEROL (GOLa)
5b: GLYCEROL (GOLb)
5c: GLYCEROL (GOLc)
5d: GLYCEROL (GOLd)
5e: GLYCEROL (GOLe)
5f: GLYCEROL (GOLf)
5g: GLYCEROL (GOLg)
5h: GLYCEROL (GOLh)
5i: GLYCEROL (GOLi)
5j: GLYCEROL (GOLj)
5k: GLYCEROL (GOLk)
5l: GLYCEROL (GOLl)
5m: GLYCEROL (GOLm)
5n: GLYCEROL (GOLn)
6a: ALPHA-D-MANNOSE (MANa)
7a: N-ACETYL-D-GLUCOSAMINE (NAGa)
7aa: N-ACETYL-D-GLUCOSAMINE (NAGaa)
7ab: N-ACETYL-D-GLUCOSAMINE (NAGab)
7b: N-ACETYL-D-GLUCOSAMINE (NAGb)
7c: N-ACETYL-D-GLUCOSAMINE (NAGc)
7d: N-ACETYL-D-GLUCOSAMINE (NAGd)
7e: N-ACETYL-D-GLUCOSAMINE (NAGe)
7f: N-ACETYL-D-GLUCOSAMINE (NAGf)
7g: N-ACETYL-D-GLUCOSAMINE (NAGg)
7h: N-ACETYL-D-GLUCOSAMINE (NAGh)
7i: N-ACETYL-D-GLUCOSAMINE (NAGi)
7j: N-ACETYL-D-GLUCOSAMINE (NAGj)
7k: N-ACETYL-D-GLUCOSAMINE (NAGk)
7l: N-ACETYL-D-GLUCOSAMINE (NAGl)
7m: N-ACETYL-D-GLUCOSAMINE (NAGm)
7n: N-ACETYL-D-GLUCOSAMINE (NAGn)
7o: N-ACETYL-D-GLUCOSAMINE (NAGo)
7p: N-ACETYL-D-GLUCOSAMINE (NAGp)
7q: N-ACETYL-D-GLUCOSAMINE (NAGq)
7r: N-ACETYL-D-GLUCOSAMINE (NAGr)
7s: N-ACETYL-D-GLUCOSAMINE (NAGs)
7t: N-ACETYL-D-GLUCOSAMINE (NAGt)
7u: N-ACETYL-D-GLUCOSAMINE (NAGu)
7v: N-ACETYL-D-GLUCOSAMINE (NAGv)
7w: N-ACETYL-D-GLUCOSAMINE (NAGw)
7x: N-ACETYL-D-GLUCOSAMINE (NAGx)
7y: N-ACETYL-D-GLUCOSAMINE (NAGy)
7z: N-ACETYL-D-GLUCOSAMINE (NAGz)
8a: NITRATE ION (NO3a)
8b: NITRATE ION (NO3b)
8c: NITRATE ION (NO3c)
8d: NITRATE ION (NO3d)
8e: NITRATE ION (NO3e)
8f: NITRATE ION (NO3f)
8g: NITRATE ION (NO3g)
8h: NITRATE ION (NO3h)
8i: NITRATE ION (NO3i)
8j: NITRATE ION (NO3j)
8k: NITRATE ION (NO3k)
8l: NITRATE ION (NO3l)
8m: NITRATE ION (NO3m)
8n: NITRATE ION (NO3n)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
2
Ligand/Ion
BETA-D-MANNOSE
2
CA
-1
Ligand/Ion
CALCIUM ION
3
FUC
4
Ligand/Ion
ALPHA-L-FUCOSE
4
FUL
3
Ligand/Ion
BETA-L-FUCOSE
5
GOL
7
Ligand/Ion
GLYCEROL
6
MAN
1
Ligand/Ion
ALPHA-D-MANNOSE
7
NAG
17
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
8
NO3
11
Ligand/Ion
NITRATE ION
[
close Hetero Component info
]
Sites
(59, 59)
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)
46: FC1 (SOFTWARE)
47: FC2 (SOFTWARE)
48: FC3 (SOFTWARE)
49: FC4 (SOFTWARE)
50: FC5 (SOFTWARE)
51: FC6 (SOFTWARE)
52: FC7 (SOFTWARE)
53: GC4 (SOFTWARE)
54: GC8 (SOFTWARE)
55: HC2 (SOFTWARE)
56: IC4 (SOFTWARE)
57: IC8 (SOFTWARE)
58: JC1 (SOFTWARE)
59: JC2 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:269 , NAG A:502 , FUC A:504 , FUL A:505 , HOH A:770
BINDING SITE FOR RESIDUE NAG A 501
02
AC2
SOFTWARE
NAG A:501 , BMA A:503 , FUL A:505
BINDING SITE FOR RESIDUE NAG A 502
03
AC3
SOFTWARE
NAG A:502
BINDING SITE FOR RESIDUE BMA A 503
04
AC4
SOFTWARE
ASN A:269 , ILE A:314 , NAG A:501 , GOL A:512 , HOH A:716
BINDING SITE FOR RESIDUE FUC A 504
05
AC5
SOFTWARE
NAG A:501 , NAG A:502 , HOH A:770
BINDING SITE FOR RESIDUE FUL A 505
06
AC6
SOFTWARE
GLN A:258 , ASN A:259 , ILE D:415A
BINDING SITE FOR RESIDUE NAG A 506
07
AC7
SOFTWARE
ASN A:246 , ASN A:248
BINDING SITE FOR RESIDUE NAG A 507
08
AC8
SOFTWARE
ASN A:146 , HOH A:844 , HOH A:845 , HOH A:846 , PRO D:108
BINDING SITE FOR RESIDUE NAG A 508
09
AC9
SOFTWARE
ASN A:293 , ASP A:297 , ASP A:324 , GLY A:345 , GLY A:347 , HOH A:834
BINDING SITE FOR RESIDUE CA A 509
10
BC1
SOFTWARE
CYS A:124 , ASP A:125 , THR A:127 , SER A:128 , PRO A:412 , LYS A:413 , GLY A:413A , ASP A:414 , ARG A:419 , GOL A:511 , GLU B:209
BINDING SITE FOR RESIDUE GOL A 510
11
BC2
SOFTWARE
THR A:100 , CYS A:129 , ILE A:163 , THR A:445 , CYS A:447 , GOL A:510 , NO3 A:513 , HOH A:653 , HOH A:841
BINDING SITE FOR RESIDUE GOL A 511
12
BC3
SOFTWARE
ILE A:273 , PRO A:301 , GLU A:316 , MET A:340 , FUC A:504 , HOH A:660 , HOH A:697
BINDING SITE FOR RESIDUE GOL A 512
13
BC4
SOFTWARE
THR A:100 , ARG A:419 , CYS A:447 , GOL A:511 , LYS B:206 , GLU B:209 , GLU B:210 , VAL B:211
BINDING SITE FOR RESIDUE NO3 A 513
14
BC5
SOFTWARE
TYR A:277 , GLN A:350 , ARG A:406 , HOH A:721
BINDING SITE FOR RESIDUE NO3 A 514
15
BC6
SOFTWARE
ASN B:269 , THR B:271 , NAG B:502 , FUC B:505 , FUL B:506 , GLN C:454 , SER D:216
BINDING SITE FOR RESIDUE NAG B 501
16
BC7
SOFTWARE
NAG B:501 , BMA B:503 , FUL B:506
BINDING SITE FOR RESIDUE NAG B 502
17
BC8
SOFTWARE
NAG B:502 , MAN B:504
BINDING SITE FOR RESIDUE BMA B 503
18
BC9
SOFTWARE
BMA B:503 , VAL C:391
BINDING SITE FOR RESIDUE MAN B 504
19
CC1
SOFTWARE
ASN B:269 , ILE B:314 , NAG B:501 , HOH B:670 , HOH B:778 , HOH B:807
BINDING SITE FOR RESIDUE FUC B 505
20
CC2
SOFTWARE
NAG B:501 , NAG B:502 , GLN C:454
BINDING SITE FOR RESIDUE FUL B 506
21
CC3
SOFTWARE
GLN B:258 , ASN B:259 , HOH B:747
BINDING SITE FOR RESIDUE NAG B 507
22
CC4
SOFTWARE
ASN B:248
BINDING SITE FOR RESIDUE NAG B 508
23
CC5
SOFTWARE
ASN B:293 , ASP B:297 , ASP B:324 , GLY B:345 , GLY B:347 , HOH B:730
BINDING SITE FOR RESIDUE CA B 509
24
CC6
SOFTWARE
ASP B:213 , HOH B:707 , HOH B:835 , HOH B:836 , HOH B:837 , HOH B:838
BINDING SITE FOR RESIDUE CA B 510
25
CC7
SOFTWARE
MET B:91 , CYS B:92 , GLU B:93 , VAL B:94 , PRO B:359 , TRP B:361 , GLN B:378
BINDING SITE FOR RESIDUE GOL B 511
26
CC8
SOFTWARE
PHE B:104 , PRO B:105 , TRP B:106 , ILE B:426 , ASP B:428 , GLU B:442 , NO3 B:514 , HOH B:727 , HOH B:783 , GLU C:152
BINDING SITE FOR RESIDUE GOL B 512
27
CC9
SOFTWARE
TYR B:277 , ILE B:349 , GLN B:350 , ARG B:406 , HOH B:819
BINDING SITE FOR RESIDUE NO3 B 513
28
DC1
SOFTWARE
ARG B:102 , PHE B:398 , LYS B:402 , ILE B:426 , SER B:444 , TRP B:458 , GOL B:512 , GLU C:152
BINDING SITE FOR RESIDUE NO3 B 514
29
DC2
SOFTWARE
SER B:117 , ALA B:120 , LYS B:131 , GLU B:425 , GLN B:441 , GLU B:442 , LEU B:443 , HOH B:609
BINDING SITE FOR RESIDUE NO3 B 515
30
DC3
SOFTWARE
PHE B:215 , VAL B:262 , TRP B:265 , NO3 B:517 , HOH B:623 , HOH B:836 , ARG D:264
BINDING SITE FOR RESIDUE NO3 B 516
31
DC4
SOFTWARE
TRP B:265 , NO3 B:516 , HOH B:833 , ARG D:264 , LYS D:266 , HOH D:748
BINDING SITE FOR RESIDUE NO3 B 517
32
DC5
SOFTWARE
ASN C:269 , THR C:271 , NAG C:502 , FUC C:503 , FUL C:504
BINDING SITE FOR RESIDUE NAG C 501
33
DC6
SOFTWARE
NAG C:501 , FUL C:504 , HOH C:726
BINDING SITE FOR RESIDUE NAG C 502
34
DC7
SOFTWARE
ILE C:314 , NAG C:501 , HOH C:705
BINDING SITE FOR RESIDUE FUC C 503
35
DC8
SOFTWARE
NAG C:501 , NAG C:502 , HOH C:734
BINDING SITE FOR RESIDUE FUL C 504
36
DC9
SOFTWARE
TYR C:84 , GLN C:258 , ASN C:259
BINDING SITE FOR RESIDUE NAG C 505
37
EC1
SOFTWARE
PRO B:108 , ASN C:146
BINDING SITE FOR RESIDUE NAG C 506
38
EC2
SOFTWARE
ASN C:293 , ASP C:297 , ASP C:324 , GLY C:345 , GLY C:347
BINDING SITE FOR RESIDUE CA C 507
39
EC3
SOFTWARE
HOH B:791 , ASP C:213 , HOH C:668 , HOH C:755 , HOH C:756 , HOH C:758
BINDING SITE FOR RESIDUE CA C 508
40
EC4
SOFTWARE
CYS C:124 , ASP C:125 , PRO C:412 , LYS C:413 , GLY C:413A , ASP C:414 , ARG C:419 , GLU D:209
BINDING SITE FOR RESIDUE GOL C 509
41
EC5
SOFTWARE
TYR C:277 , ILE C:349 , GLN C:350 , ARG C:406 , HOH C:701
BINDING SITE FOR RESIDUE NO3 C 510
42
EC6
SOFTWARE
PHE C:215 , VAL C:262 , TRP C:265 , HOH C:687 , HOH C:722 , HOH C:758 , ARG E:264
BINDING SITE FOR RESIDUE NO3 C 511
43
EC7
SOFTWARE
ARG B:199 , ASN D:269 , THR D:271 , NAG D:502 , FUC D:503 , HOH D:811
BINDING SITE FOR RESIDUE NAG D 501
44
EC8
SOFTWARE
NAG D:501
BINDING SITE FOR RESIDUE NAG D 502
45
EC9
SOFTWARE
ASN D:269 , ILE D:314 , NAG D:501 , HOH D:666
BINDING SITE FOR RESIDUE FUC D 503
46
FC1
SOFTWARE
LEU C:415 , TYR D:84 , GLY D:235 , GLN D:258 , ASN D:259 , HOH D:766
BINDING SITE FOR RESIDUE NAG D 504
47
FC2
SOFTWARE
PRO C:108 , ASN D:146
BINDING SITE FOR RESIDUE NAG D 505
48
FC3
SOFTWARE
ASN D:293 , ASP D:297 , ASP D:324 , GLY D:345 , GLY D:347 , HOH D:782
BINDING SITE FOR RESIDUE CA D 506
49
FC4
SOFTWARE
HOH B:779 , GLN D:258 , HOH D:663 , HOH D:780 , HOH D:781 , HOH D:812
BINDING SITE FOR RESIDUE CA D 507
50
FC5
SOFTWARE
SER A:148 , GLU A:152 , GLY D:103 , PHE D:104 , LYS D:402 , ILE D:426 , ASP D:428 , NO3 D:510 , HOH D:747
BINDING SITE FOR RESIDUE GOL D 508
51
FC6
SOFTWARE
TYR D:277 , ILE D:349 , GLN D:350 , ARG D:406 , HOH D:649
BINDING SITE FOR RESIDUE NO3 D 509
52
FC7
SOFTWARE
GLU A:152 , ARG D:102 , PHE D:398 , LYS D:402 , ILE D:426 , SER D:444 , TRP D:458 , GOL D:508
BINDING SITE FOR RESIDUE NO3 D 510
53
GC4
SOFTWARE
LYS D:339 , ASN E:246 , ASN E:248 , FUC E:507
BINDING SITE FOR RESIDUE NAG E 506
54
GC8
SOFTWARE
HOH C:776 , GLN E:258 , HOH E:601 , HOH E:619 , HOH E:629 , HOH E:785
BINDING SITE FOR RESIDUE CA E 510
55
HC2
SOFTWARE
TYR C:312 , GLN C:313 , GLU E:93
BINDING SITE FOR RESIDUE GOL E 513
56
IC4
SOFTWARE
HOH A:671 , ASP F:213 , THR F:214 , HOH F:729 , HOH F:908 , HOH F:909 , HOH F:915
BINDING SITE FOR RESIDUE CA F 511
57
IC8
SOFTWARE
ARG A:304 , THR A:306 , TYR A:312 , GLN A:313 , GLU F:93 , LYS F:95 , HOH F:801
BINDING SITE FOR RESIDUE GOL F 515
58
JC1
SOFTWARE
GLU A:256 , ARG A:264 , GLU A:309 , HOH A:666 , HOH A:713 , HOH A:753 , VAL F:262 , GLN F:263
BINDING SITE FOR RESIDUE NO3 F 517
59
JC2
SOFTWARE
ARG A:264 , PHE F:215 , TRP F:265 , HOH F:684 , HOH F:908 , HOH F:914
BINDING SITE FOR RESIDUE NO3 F 518
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
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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
(1, 6)
Info
All SCOP Domains
1a: SCOP_d4gdia_ (A:)
1b: SCOP_d4gdib_ (B:)
1c: SCOP_d4gdic_ (C:)
1d: SCOP_d4gdid_ (D:)
1e: SCOP_d4gdie_ (E:)
1f: SCOP_d4gdif_ (F:)
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Class
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All beta proteins
(24004)
Fold
:
6-bladed beta-propeller
(327)
Superfamily
:
Sialidases
(238)
Family
:
automated matches
(54)
Protein domain
:
automated matches
(54)
Influenza A virus [TaxId: 11320]
(31)
1a
d4gdia_
A:
1b
d4gdib_
B:
1c
d4gdic_
C:
1d
d4gdid_
D:
1e
d4gdie_
E:
1f
d4gdif_
F:
[
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CATH Domains
(0, 0)
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all CATH domains
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Pfam Domains
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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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Asym.Unit (1.1 MB)
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Biol.Unit 1 (746 KB)
Header - Biol.Unit 1
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