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2CML
Asym. Unit
Info
Asym.Unit (276 KB)
Biol.Unit 1 (264 KB)
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(1)
Title
:
STRUCTURE OF NEURAMINIDASE FROM ENGLISH DUCK SUBTYPE N6 COMPLEXED WITH 30 MM ZANAMIVIR, CRYSTAL SOAKED FOR 3 HOURS AT 291 K.
Authors
:
E. Rudino-Pinera, P. Tunnah, P. Lukacik, S. J. Crennell, R. G. Webster, W. G. Laver, E. F. Garman
Date
:
10 May 06 (Deposition) - 05 Jun 07 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.15
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Hb Site, Hydrolase, Subtype N6, Glycosidase, Influenza Type A, Sialic Acid, Neuraminidase, Transmembrane
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. Rudino-Pinera, P. Tunnah, S. J. Crennell, R. G. Webster, W. G. Laver, E. F. Garman
The Crystal Structure Of Type A Influenza Virus Neuraminidase Of The N6 Subtype Reveals The Existence Of Two Separate Neu5Ac Binding Sites
To Be Published
[
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Hetero Components
(5, 48)
Info
All Hetero Components
1a: BETA-D-MANNOSE (BMAa)
1b: BETA-D-MANNOSE (BMAb)
1c: BETA-D-MANNOSE (BMAc)
1d: BETA-D-MANNOSE (BMAd)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
3a: ALPHA-D-MANNOSE (MANa)
3b: ALPHA-D-MANNOSE (MANb)
3c: ALPHA-D-MANNOSE (MANc)
3d: ALPHA-D-MANNOSE (MANd)
3e: ALPHA-D-MANNOSE (MANe)
3f: ALPHA-D-MANNOSE (MANf)
3g: ALPHA-D-MANNOSE (MANg)
3h: ALPHA-D-MANNOSE (MANh)
3i: ALPHA-D-MANNOSE (MANi)
3j: ALPHA-D-MANNOSE (MANj)
3k: ALPHA-D-MANNOSE (MANk)
3l: ALPHA-D-MANNOSE (MANl)
3m: ALPHA-D-MANNOSE (MANm)
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)
4k: N-ACETYL-D-GLUCOSAMINE (NAGk)
4l: N-ACETYL-D-GLUCOSAMINE (NAGl)
4m: N-ACETYL-D-GLUCOSAMINE (NAGm)
4n: N-ACETYL-D-GLUCOSAMINE (NAGn)
4o: N-ACETYL-D-GLUCOSAMINE (NAGo)
4p: N-ACETYL-D-GLUCOSAMINE (NAGp)
4q: N-ACETYL-D-GLUCOSAMINE (NAGq)
4r: N-ACETYL-D-GLUCOSAMINE (NAGr)
4s: N-ACETYL-D-GLUCOSAMINE (NAGs)
5a: ZANAMIVIR (ZMRa)
5b: ZANAMIVIR (ZMRb)
5c: ZANAMIVIR (ZMRc)
5d: ZANAMIVIR (ZMRd)
5e: ZANAMIVIR (ZMRe)
5f: ZANAMIVIR (ZMRf)
5g: ZANAMIVIR (ZMRg)
5h: ZANAMIVIR (ZMRh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
BMA
4
Ligand/Ion
BETA-D-MANNOSE
2
CA
4
Ligand/Ion
CALCIUM ION
3
MAN
13
Ligand/Ion
ALPHA-D-MANNOSE
4
NAG
19
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
5
ZMR
8
Ligand/Ion
ZANAMIVIR
[
close Hetero Component info
]
Sites
(48, 48)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:92 , LYS A:241 , NAG A:1481
BINDING SITE FOR RESIDUE NAG A1480
02
AC2
SOFTWARE
NAG A:1480
BINDING SITE FOR RESIDUE NAG A1481
03
AC3
SOFTWARE
ASN A:152 , LEU A:445 , NAG A:1483 , TYR C:2474
BINDING SITE FOR RESIDUE NAG A1482
04
AC4
SOFTWARE
NAG A:1482
BINDING SITE FOR RESIDUE NAG A1483
05
AC5
SOFTWARE
LEU A:384 , PRO A:397 , ASN A:400 , MAN A:1486 , MAN A:1487 , BMA A:1709 , HOH A:2104
BINDING SITE FOR RESIDUE MAN A1485
06
AC6
SOFTWARE
ASP A:337 , ARG A:371 , PRO A:397 , MAN A:1485
BINDING SITE FOR RESIDUE MAN A1486
07
AC7
SOFTWARE
GLU A:382 , ASN A:400 , VAL A:402 , MAN A:1485
BINDING SITE FOR RESIDUE MAN A1487
08
AC8
SOFTWARE
ILE A:398 , SER A:399 , ASN A:400 , MAN A:1485 , NAG B:2483
BINDING SITE FOR RESIDUE BMA A1709
09
AC9
SOFTWARE
TYR A:474 , ASN B:1152 , LEU B:1445 , HOH B:2109 , NAG B:2481
BINDING SITE FOR RESIDUE NAG B2480
10
BC1
SOFTWARE
NAG B:2480
BINDING SITE FOR RESIDUE NAG B2481
11
BC2
SOFTWARE
ARG A:460 , LEU A:461 , GLY A:462 , ASN B:1207 , NAG B:2483
BINDING SITE FOR RESIDUE NAG B2482
12
BC3
SOFTWARE
SER A:399 , ASN A:400 , BMA A:1709 , NAG B:2482
BINDING SITE FOR RESIDUE NAG B2483
13
BC4
SOFTWARE
GLU B:1382 , PRO B:1397 , ASN B:1400 , MAN B:2485 , MAN B:2486 , BMA D:4486
BINDING SITE FOR RESIDUE MAN B2484
14
BC5
SOFTWARE
ASP B:1337 , ARG B:1371 , MAN B:2484
BINDING SITE FOR RESIDUE MAN B2485
15
BC6
SOFTWARE
GLU B:1382 , ASN B:1400 , VAL B:1402 , MAN B:2484
BINDING SITE FOR RESIDUE MAN B2486
16
BC7
SOFTWARE
PRO C:2397 , ILE C:2398 , SER C:2399 , ASN C:2400 , NAG C:3481 , MAN C:3483 , MAN C:3490
BINDING SITE FOR RESIDUE BMA C1709
17
BC8
SOFTWARE
ASN A:206 , ASN A:207 , ARG C:2460 , LEU C:2461 , GLY C:2462 , NAG C:3481
BINDING SITE FOR RESIDUE NAG C3480
18
BC9
SOFTWARE
BMA C:1709 , ASN C:2101 , SER C:2399 , ASN C:2400 , NAG C:3480 , MAN C:3490
BINDING SITE FOR RESIDUE NAG C3481
19
CC1
SOFTWARE
BMA C:1709 , PRO C:2397 , MAN C:3484 , MAN C:3485 , HOH C:4067
BINDING SITE FOR RESIDUE MAN C3483
20
CC2
SOFTWARE
ASP C:2337 , ARG C:2371 , MAN C:3483
BINDING SITE FOR RESIDUE MAN C3484
21
CC3
SOFTWARE
GLU C:2382 , ASN C:2400 , VAL C:2402 , MAN C:3483
BINDING SITE FOR RESIDUE MAN C3485
22
CC4
SOFTWARE
THR C:2089 , PHE C:2090 , ASN C:2092 , LYS C:2241
BINDING SITE FOR RESIDUE NAG C3486
23
CC5
SOFTWARE
ASN C:2152 , LEU C:2445 , NAG C:3488 , TYR D:3474
BINDING SITE FOR RESIDUE NAG C3487
24
CC6
SOFTWARE
NAG C:3487
BINDING SITE FOR RESIDUE NAG C3488
25
CC7
SOFTWARE
ASN C:2207 , NAG C:3494 , LEU D:3461 , GLY D:3462 , SER D:3463
BINDING SITE FOR RESIDUE NAG C3489
26
CC8
SOFTWARE
BMA C:1709 , NAG C:3481 , MAN C:3492 , HOH C:4095 , HOH C:4096
BINDING SITE FOR RESIDUE MAN C3490
27
CC9
SOFTWARE
MAN C:3490
BINDING SITE FOR RESIDUE MAN C3492
28
DC1
SOFTWARE
NAG C:3494 , PRO D:3397 , ILE D:3398 , ASN D:3400 , MAN D:4480
BINDING SITE FOR RESIDUE BMA C3493
29
DC2
SOFTWARE
NAG C:3489 , BMA C:3493 , SER D:3399 , ASN D:3400
BINDING SITE FOR RESIDUE NAG C3494
30
DC3
SOFTWARE
BMA C:3493 , GLU D:3382 , LEU D:3384 , PRO D:3397 , ASN D:3400 , MAN D:4481
BINDING SITE FOR RESIDUE MAN D4480
31
DC4
SOFTWARE
ILE D:3373 , GLU D:3382 , MAN D:4480
BINDING SITE FOR RESIDUE MAN D4481
32
DC5
SOFTWARE
ASN D:3092 , THR D:3094
BINDING SITE FOR RESIDUE NAG D4482
33
DC6
SOFTWARE
TYR B:1474 , HOH D:2077 , HOH D:2078 , ASN D:3152
BINDING SITE FOR RESIDUE NAG D4483
34
DC7
SOFTWARE
LEU B:1461 , GLY B:1462 , SER B:1463 , ASN D:3207 , NAG D:4485
BINDING SITE FOR RESIDUE NAG D4484
35
DC8
SOFTWARE
ASN B:1101 , SER B:1399 , ASN B:1400 , ARG B:1460 , NAG D:4484 , BMA D:4486
BINDING SITE FOR RESIDUE NAG D4485
36
DC9
SOFTWARE
ILE B:1398 , SER B:1399 , ASN B:1400 , MAN B:2484 , NAG D:4485
BINDING SITE FOR RESIDUE BMA D4486
37
EC1
SOFTWARE
ASP A:300 , GLY A:304 , ASP A:331 , PRO A:354 , HOH A:2075
BINDING SITE FOR RESIDUE CA A1479
38
EC2
SOFTWARE
ASP B:1300 , GLY B:1304 , ASP B:1331 , PRO B:1354 , HOH B:2071
BINDING SITE FOR RESIDUE CA B2479
39
EC3
SOFTWARE
ASP C:2300 , GLY C:2304 , ASP C:2331 , PRO C:2354 , HOH C:4065
BINDING SITE FOR RESIDUE CA C3479
40
EC4
SOFTWARE
HOH D:2061 , ASP D:3300 , GLY D:3304 , ASP D:3331 , PRO D:3354
BINDING SITE FOR RESIDUE CA D4479
41
EC5
SOFTWARE
ARG A:124 , GLU A:125 , ASP A:157 , ARG A:158 , ARG A:162 , TRP A:185 , ARG A:231 , GLU A:234 , ALA A:253 , GLU A:283 , GLU A:284 , ARG A:299 , ARG A:378 , TYR A:412 , HOH A:2043 , HOH A:2102
BINDING SITE FOR RESIDUE ZMR A1477
42
EC6
SOFTWARE
SER A:374 , SER A:377 , SER A:379 , ASN A:406 , GLN A:407 , ASN A:408 , TRP A:409
BINDING SITE FOR RESIDUE ZMR A1478
43
EC7
SOFTWARE
ARG B:1124 , GLU B:1125 , ASP B:1157 , ARG B:1158 , ARG B:1162 , TRP B:1185 , ILE B:1229 , GLU B:1234 , ALA B:1253 , GLU B:1283 , GLU B:1284 , ARG B:1299 , ARG B:1378 , TYR B:1412 , HOH B:2056 , HOH B:2107 , HOH B:2108
BINDING SITE FOR RESIDUE ZMR B2477
44
EC8
SOFTWARE
SER B:1374 , SER B:1377 , SER B:1379 , ASN B:1406 , GLN B:1407 , ASN B:1408 , TRP B:1409
BINDING SITE FOR RESIDUE ZMR B2478
45
EC9
SOFTWARE
ARG C:2124 , GLU C:2125 , ASP C:2157 , ARG C:2158 , ARG C:2162 , TRP C:2185 , ILE C:2229 , ARG C:2231 , GLU C:2234 , ALA C:2253 , GLU C:2283 , GLU C:2284 , ARG C:2299 , ARG C:2378 , TYR C:2412 , HOH C:4051 , HOH C:4091 , HOH C:4092
BINDING SITE FOR RESIDUE ZMR C3477
46
FC1
SOFTWARE
SER C:2374 , ASP C:2376 , SER C:2377 , SER C:2379 , ASN C:2406 , GLN C:2407 , ASN C:2408 , TRP C:2409
BINDING SITE FOR RESIDUE ZMR C3478
47
FC2
SOFTWARE
ARG D:3124 , GLU D:3125 , ASP D:3157 , ARG D:3158 , ARG D:3162 , TRP D:3185 , ILE D:3229 , GLU D:3234 , ALA D:3253 , GLU D:3283 , GLU D:3284 , ARG D:3299 , ARG D:3378 , TYR D:3412
BINDING SITE FOR RESIDUE ZMR D4477
48
FC3
SOFTWARE
SER D:3374 , ASP D:3376 , SER D:3377 , SER D:3379 , ASN D:3406 , GLN D:3407 , ASN D:3408 , TRP D:3409
BINDING SITE FOR RESIDUE ZMR D4478
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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[
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PROSITE Patterns/Profiles
(0, 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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Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d2cmla_ (A:)
1b: SCOP_d2cmlb_ (B:)
1c: SCOP_d2cmlc_ (C:)
1d: SCOP_d2cmld_ (D:)
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Protein Domains
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(
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Organisms
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(
)
Class
:
All beta proteins
(24004)
Fold
:
6-bladed beta-propeller
(327)
Superfamily
:
Sialidases
(238)
Family
:
Sialidases (neuraminidases)
(178)
Protein domain
:
Influenza neuraminidase
(78)
Influenza A virus, different strains [TaxId: 11320]
(61)
1a
d2cmla_
A:
1b
d2cmlb_
B:
1c
d2cmlc_
C:
1d
d2cmld_
D:
[
close SCOP info
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2cmlA00 (A:88-476)
1b: CATH_2cmlB00 (B:1088-1476)
1c: CATH_2cmlC00 (C:2088-2476)
1d: CATH_2cmlD00 (D:3088-3476)
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Organisms
(
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(
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Class
:
Mainly Beta
(13760)
Architecture
:
6 Propellor
(215)
Topology
:
Neuraminidase
(215)
Homologous Superfamily
:
[code=2.120.10.10, no name defined]
(150)
Influenza a virus. Organism_taxid: 11320.
(5)
1a
2cmlA00
A:88-476
1b
2cmlB00
B:1088-1476
1c
2cmlC00
C:2088-2476
1d
2cmlD00
D:3088-3476
[
close CATH info
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Pfam Domains
(0, 0)
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all PFAM domains
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