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1NLX
Biol. Unit 1
Info
Asym.Unit (235 KB)
Biol.Unit 1 (227 KB)
Biol.Unit 10 (36 KB)
Biol.Unit 11 (37 KB)
Biol.Unit 12 (36 KB)
Biol.Unit 13 (37 KB)
Biol.Unit 14 (37 KB)
Biol.Unit 2 (37 KB)
Biol.Unit 3 (36 KB)
Biol.Unit 4 (37 KB)
Biol.Unit 5 (37 KB)
Biol.Unit 6 (36 KB)
Biol.Unit 7 (37 KB)
Biol.Unit 8 (37 KB)
Biol.Unit 9 (37 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PHL P 6, A MAJOR TIMOTHY GRASS POLLEN ALLERGEN CO-CRYSTALLIZED WITH ZINC
Authors
:
A. A. Fedorov, T. Ball, E. V. Fedorov, S. Vrtala, R. Valenta, S. C. Almo, S. K. Burley, New York Sgx Research Center For Structural Geno (Nysgxrc)
Date
:
07 Jan 03 (Deposition) - 21 Jan 03 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N
Biol. Unit 1: A,B,C,D,E,F,G,H,I,J,K,L,M,N (1x)
Biol. Unit 2: A,N (1x)
Biol. Unit 3: B,H (1x)
Biol. Unit 4: I,M (1x)
Biol. Unit 5: D,F (1x)
Biol. Unit 6: G,K (1x)
Biol. Unit 7: E,L (1x)
Biol. Unit 8: I,J (1x)
Biol. Unit 9: C,D (1x)
Biol. Unit 10: K,L (1x)
Biol. Unit 11: E,F (1x)
Biol. Unit 12: A,B (1x)
Biol. Unit 13: G,H (1x)
Biol. Unit 14: M,N (1x)
Keywords
:
Allergen Phl P 6, Four-Helix-Bundle, Structural Genomics, Psi, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Allergen
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. A. Fedorov, T. Ball, E. V. Fedorov, S. Vrtala, R. Valenta, S. C. Almo
Crystal Structure Oh Phl P 6, A Major Timothy Grass Pollen Allergen Co-Crystallized With Zinc
To Be Published
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(1, 7)
Info
All Hetero Components
1a: ARSENIC (ARSa)
1b: ARSENIC (ARSb)
1c: ARSENIC (ARSc)
1d: ARSENIC (ARSd)
1e: ARSENIC (ARSe)
1f: ARSENIC (ARSf)
1g: ARSENIC (ARSg)
2a: ZINC ION (ZNa)
2aa: ZINC ION (ZNaa)
2ab: ZINC ION (ZNab)
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)
2m: ZINC ION (ZNm)
2n: ZINC ION (ZNn)
2o: ZINC ION (ZNo)
2p: ZINC ION (ZNp)
2q: ZINC ION (ZNq)
2r: ZINC ION (ZNr)
2s: ZINC ION (ZNs)
2t: ZINC ION (ZNt)
2u: ZINC ION (ZNu)
2v: ZINC ION (ZNv)
2w: ZINC ION (ZNw)
2x: ZINC ION (ZNx)
2y: ZINC ION (ZNy)
2z: ZINC ION (ZNz)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ARS
7
Ligand/Ion
ARSENIC
2
ZN
-1
Ligand/Ion
ZINC ION
[
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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
ASP A:476 , ASN B:673 , ASP B:676 , HIS B:677 , GLU H:1903
BINDING SITE FOR RESIDUE ZN A 5001
02
AC2
SOFTWARE
ASN A:473 , ASP A:476 , HIS A:477 , ASP B:676 , GLU N:3103
BINDING SITE FOR RESIDUE ZN B 5002
03
AC3
SOFTWARE
ASP C:876 , ASN D:1073 , ASP D:1076 , HIS D:1077 , GLU F:1503
BINDING SITE FOR RESIDUE ZN C 5003
04
AC4
SOFTWARE
ASN C:873 , ASP C:876 , HIS C:877 , ASP D:1076 , GLU J:2303
BINDING SITE FOR RESIDUE ZN D 5004
05
AC5
SOFTWARE
GLU D:1103 , ASP E:1276 , ASN F:1473 , ASP F:1476 , HIS F:1477
BINDING SITE FOR RESIDUE ZN E 5005
06
AC6
SOFTWARE
ASN E:1273 , ASP E:1276 , HIS E:1277 , ASP F:1476 , GLU L:2703
BINDING SITE FOR RESIDUE ZN F 5006
07
AC7
SOFTWARE
GLU B:703 , ASP G:1676 , ASN H:1873 , ASP H:1876 , HIS H:1877
BINDING SITE FOR RESIDUE ZN G 5007
08
AC8
SOFTWARE
ASN G:1673 , ASP G:1676 , HIS G:1677 , ASP H:1876 , GLU K:2503
BINDING SITE FOR RESIDUE ZN H 5008
09
AC9
SOFTWARE
GLU C:903 , ASP I:2076 , ASN J:2273 , ASP J:2276 , HIS J:2277
BINDING SITE FOR RESIDUE ZN I 5009
10
BC1
SOFTWARE
ASN I:2073 , ASP I:2076 , HIS I:2077 , ASP J:2276 , GLU M:2903
BINDING SITE FOR RESIDUE ZN J 5010
11
BC2
SOFTWARE
GLU E:1303 , ASP K:2476 , ASN L:2673 , ASP L:2676 , HIS L:2677
BINDING SITE FOR RESIDUE ZN K 5011
12
BC3
SOFTWARE
GLU G:1703 , ASN K:2473 , ASP K:2476 , HIS K:2477 , ASP L:2676
BINDING SITE FOR RESIDUE ZN L 5012
13
BC4
SOFTWARE
GLU A:503 , ASP M:2876 , ASN N:3073 , ASP N:3076 , HIS N:3077
BINDING SITE FOR RESIDUE ZN M 5013
14
BC5
SOFTWARE
GLU I:2103 , ASN M:2873 , ASP M:2876 , HIS M:2877 , ASP N:3076
BINDING SITE FOR RESIDUE ZN N 5014
15
BC6
SOFTWARE
HIS A:490 , GLU N:3093 , HIS N:3105 , ARS N:7001
BINDING SITE FOR RESIDUE ZN A 6001
16
BC7
SOFTWARE
HIS B:690 , ARS B:7002 , GLU H:1893 , HIS H:1905
BINDING SITE FOR RESIDUE ZN B 6002
17
BC8
SOFTWARE
HIS C:890 , ARS C:7003 , GLU J:2293 , HIS J:2305
BINDING SITE FOR RESIDUE ZN C 6003
18
BC9
SOFTWARE
HIS D:1090 , ARS D:7004 , GLU F:1493 , HIS F:1505
BINDING SITE FOR RESIDUE ZN D 6004
19
CC1
SOFTWARE
HIS E:1290 , GLU L:2693 , HIS L:2705 , ARS L:7005
BINDING SITE FOR RESIDUE ZN E 6005
20
CC2
SOFTWARE
GLU D:1093 , HIS D:1105 , ARS D:7004 , HIS F:1490
BINDING SITE FOR RESIDUE ZN F 6006
21
CC3
SOFTWARE
HIS G:1690 , GLU K:2493 , HIS K:2505 , ARS K:7007
BINDING SITE FOR RESIDUE ZN G 6007
22
CC4
SOFTWARE
GLU B:693 , HIS B:705 , ARS B:7002 , HIS H:1890
BINDING SITE FOR RESIDUE ZN H 6008
23
CC5
SOFTWARE
HIS I:2090 , ARS I:7009 , GLU M:2893 , HIS M:2905
BINDING SITE FOR RESIDUE ZN I 6009
24
CC6
SOFTWARE
GLU C:893 , HIS C:905 , ARS C:7003 , HIS J:2290
BINDING SITE FOR RESIDUE ZN J 6010
25
CC7
SOFTWARE
GLU G:1693 , HIS G:1705 , HIS K:2490 , ARS K:7007
BINDING SITE FOR RESIDUE ZN K 6011
26
CC8
SOFTWARE
GLU E:1293 , HIS E:1305 , HIS L:2690 , ARS L:7005
BINDING SITE FOR RESIDUE ZN L 6012
27
CC9
SOFTWARE
GLU I:2093 , HIS I:2105 , ARS I:7009 , HIS M:2890
BINDING SITE FOR RESIDUE ZN M 6013
28
DC1
SOFTWARE
GLU A:493 , HIS A:505 , HIS N:3090 , ARS N:7001
BINDING SITE FOR RESIDUE ZN N 6014
29
DC2
SOFTWARE
ZN A:6001 , ZN N:6014
BINDING SITE FOR RESIDUE ARS N 7001
30
DC3
SOFTWARE
ZN B:6002 , ZN H:6008
BINDING SITE FOR RESIDUE ARS B 7002
31
DC4
SOFTWARE
ZN C:6003 , GLU J:2293 , ZN J:6010
BINDING SITE FOR RESIDUE ARS C 7003
32
DC5
SOFTWARE
ZN D:6004 , ZN F:6006
BINDING SITE FOR RESIDUE ARS D 7004
33
DC6
SOFTWARE
ZN E:6005 , GLU L:2693 , ZN L:6012
BINDING SITE FOR RESIDUE ARS L 7005
34
DC7
SOFTWARE
GLU G:1693 , ZN G:6007 , ZN K:6011
BINDING SITE FOR RESIDUE ARS K 7007
35
DC8
SOFTWARE
GLU I:2093 , ZN I:6009 , GLU M:2893 , ZN M:6013
BINDING SITE FOR RESIDUE ARS I 7009
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
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]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
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.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 14)
Info
All SCOP Domains
1a: SCOP_d1nlxa_ (A:)
1b: SCOP_d1nlxb_ (B:)
1c: SCOP_d1nlxk_ (K:)
1d: SCOP_d1nlxl_ (L:)
1e: SCOP_d1nlxm_ (M:)
1f: SCOP_d1nlxn_ (N:)
1g: SCOP_d1nlxc_ (C:)
1h: SCOP_d1nlxd_ (D:)
1i: SCOP_d1nlxe_ (E:)
1j: SCOP_d1nlxf_ (F:)
1k: SCOP_d1nlxg_ (G:)
1l: SCOP_d1nlxh_ (H:)
1m: SCOP_d1nlxi_ (I:)
1n: SCOP_d1nlxj_ (J:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All alpha proteins
(14657)
Fold
:
Four-helical up-and-down bundle
(308)
Superfamily
:
Group V grass pollen allergen
(2)
Family
:
Group V grass pollen allergen
(2)
Protein domain
:
Pollen allergen Phl P 6
(1)
Timothy grass (Phleum pratense) [TaxId: 15957]
(1)
1a
d1nlxa_
A:
1b
d1nlxb_
B:
1c
d1nlxk_
K:
1d
d1nlxl_
L:
1e
d1nlxm_
M:
1f
d1nlxn_
N:
1g
d1nlxc_
C:
1h
d1nlxd_
D:
1i
d1nlxe_
E:
1j
d1nlxf_
F:
1k
d1nlxg_
G:
1l
d1nlxh_
H:
1m
d1nlxi_
I:
1n
d1nlxj_
J:
[
close SCOP info
]
CATH Domains
(1, 14)
Info
all CATH domains
1a: CATH_1nlxA00 (A:404-507)
1b: CATH_1nlxJ00 (J:2204-2307)
1c: CATH_1nlxK00 (K:2404-2507)
1d: CATH_1nlxL00 (L:2604-2707)
1e: CATH_1nlxM00 (M:2804-2907)
1f: CATH_1nlxN00 (N:3004-3107)
1g: CATH_1nlxB00 (B:604-707)
1h: CATH_1nlxC00 (C:804-907)
1i: CATH_1nlxD00 (D:1004-1107)
1j: CATH_1nlxE00 (E:1204-1307)
1k: CATH_1nlxF00 (F:1404-1507)
1l: CATH_1nlxG00 (G:1604-1707)
1m: CATH_1nlxH00 (H:1804-1907)
1n: CATH_1nlxI00 (I:2004-2107)
View:
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(
)
(
)
Architectures
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)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Four Helix Bundle (Hemerythrin (Met), subunit A)
(300)
Homologous Superfamily
:
[code=1.20.120.320, no name defined]
(2)
Timothy grass (Phleum pratense)
(2)
1a
1nlxA00
A:404-507
1b
1nlxJ00
J:2204-2307
1c
1nlxK00
K:2404-2507
1d
1nlxL00
L:2604-2707
1e
1nlxM00
M:2804-2907
1f
1nlxN00
N:3004-3107
1g
1nlxB00
B:604-707
1h
1nlxC00
C:804-907
1i
1nlxD00
D:1004-1107
1j
1nlxE00
E:1204-1307
1k
1nlxF00
F:1404-1507
1l
1nlxG00
G:1604-1707
1m
1nlxH00
H:1804-1907
1n
1nlxI00
I:2004-2107
[
close CATH info
]
Pfam Domains
(1, 14)
Info
all PFAM domains
1a: PFAM_Pollen_allerg_2_1nlxN01 (N:3004-3107)
1b: PFAM_Pollen_allerg_2_1nlxN02 (N:3004-3107)
1c: PFAM_Pollen_allerg_2_1nlxN03 (N:3004-3107)
1d: PFAM_Pollen_allerg_2_1nlxN04 (N:3004-3107)
1e: PFAM_Pollen_allerg_2_1nlxN05 (N:3004-3107)
1f: PFAM_Pollen_allerg_2_1nlxN06 (N:3004-3107)
1g: PFAM_Pollen_allerg_2_1nlxN07 (N:3004-3107)
1h: PFAM_Pollen_allerg_2_1nlxN08 (N:3004-3107)
1i: PFAM_Pollen_allerg_2_1nlxN09 (N:3004-3107)
1j: PFAM_Pollen_allerg_2_1nlxN10 (N:3004-3107)
1k: PFAM_Pollen_allerg_2_1nlxN11 (N:3004-3107)
1l: PFAM_Pollen_allerg_2_1nlxN12 (N:3004-3107)
1m: PFAM_Pollen_allerg_2_1nlxN13 (N:3004-3107)
1n: PFAM_Pollen_allerg_2_1nlxN14 (N:3004-3107)
View:
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Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
no clan defined [family: Pollen_allerg_2]
(2)
Family
:
Pollen_allerg_2
(2)
Phleum pratense (Common timothy)
(2)
1a
Pollen_allerg_2-1nlxN01
N:3004-3107
1b
Pollen_allerg_2-1nlxN02
N:3004-3107
1c
Pollen_allerg_2-1nlxN03
N:3004-3107
1d
Pollen_allerg_2-1nlxN04
N:3004-3107
1e
Pollen_allerg_2-1nlxN05
N:3004-3107
1f
Pollen_allerg_2-1nlxN06
N:3004-3107
1g
Pollen_allerg_2-1nlxN07
N:3004-3107
1h
Pollen_allerg_2-1nlxN08
N:3004-3107
1i
Pollen_allerg_2-1nlxN09
N:3004-3107
1j
Pollen_allerg_2-1nlxN10
N:3004-3107
1k
Pollen_allerg_2-1nlxN11
N:3004-3107
1l
Pollen_allerg_2-1nlxN12
N:3004-3107
1m
Pollen_allerg_2-1nlxN13
N:3004-3107
1n
Pollen_allerg_2-1nlxN14
N:3004-3107
[
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Asym.Unit (235 KB)
Header - Asym.Unit
Biol.Unit 1 (227 KB)
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Biol.Unit 10 (36 KB)
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