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4CQK
Asym. Unit
Info
Asym.Unit (262 KB)
Biol.Unit 1 (39 KB)
Biol.Unit 2 (39 KB)
Biol.Unit 3 (39 KB)
Biol.Unit 4 (39 KB)
Biol.Unit 5 (39 KB)
Biol.Unit 6 (39 KB)
Biol.Unit 7 (39 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF LIGAND-BOUND NAD1
Authors
:
F. T. Lay, G. M. Mills, I. K. H. Poon, A. A. Baxter, M. D. Hulett, M. Kvansak
Date
:
17 Feb 14 (Deposition) - 16 Apr 14 (Release) - 16 Apr 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.60
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N
Biol. Unit 1: A,C (1x)
Biol. Unit 2: I,K (1x)
Biol. Unit 3: F,H (1x)
Biol. Unit 4: L,M (1x)
Biol. Unit 5: E,N (1x)
Biol. Unit 6: D,G (1x)
Biol. Unit 7: B,J (1x)
Keywords
:
Plant Protein, Innate Immunity
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
I. K. H. Poon, A. A. Baxter, F. T. Lay, G. D. Mills, C. G. Adda, J. A. Payne, T. K. Phan, G. F. Ryan, J. A. White, P. K. Veneer, N. L. Van Der Weerden, M. A. Anderson, M. Kvansakul, M. D. Hulett
Phosphoinositide-Mediated Oligomerization Of A Defensin Induces Cell Lysis.
Elife V. 3 1808 2014
[
close entry info
]
Hetero Components
(3, 38)
Info
All Hetero Components
1a: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDa)
1b: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDb)
1c: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDc)
1d: (4R)-2-METHYLPENTANE-2,4-DIOL (MRDd)
2a: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOa)
2b: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOb)
2c: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOc)
2d: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOd)
2e: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOe)
2f: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOf)
2g: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOg)
2h: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOh)
2i: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOi)
2j: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOj)
2k: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOk)
2l: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOl)
2m: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOm)
2n: [(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(... (PIOn)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
3i: SULFATE ION (SO4i)
3j: SULFATE ION (SO4j)
3k: SULFATE ION (SO4k)
3l: SULFATE ION (SO4l)
3m: SULFATE ION (SO4m)
3n: SULFATE ION (SO4n)
3o: SULFATE ION (SO4o)
3p: SULFATE ION (SO4p)
3q: SULFATE ION (SO4q)
3r: SULFATE ION (SO4r)
3s: SULFATE ION (SO4s)
3t: SULFATE ION (SO4t)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MRD
4
Ligand/Ion
(4R)-2-METHYLPENTANE-2,4-DIOL
2
PIO
14
Ligand/Ion
[(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(1R,2R,3S,4R,5R,6S)-2,3,6-TRIS(OXIDANYL)-4,5-DIPHOSPHONOOXY-CYCLOHEXYL]OXY-PHOSPHORYL]OXY-PROPYL]OCTANOATE
3
SO4
20
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(38, 38)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PIO A:1048 , LYS B:4 , HIS B:33 , SER B:35 , LYS B:36 , ILE B:37 , LEU B:38 , ARG B:40 , HOH B:2064 , HOH B:2065 , HOH B:2066 , HOH B:2068 , HOH B:2069 , HOH B:2070 , LYS C:36 , LYS H:36 , PIO H:1048 , ARG J:40 , PIO J:1048
BINDING SITE FOR RESIDUE PIO B1048
02
AC2
SOFTWARE
ILE B:37 , ARG B:40 , PIO B:1048 , HOH B:2064 , HOH B:2070 , LYS C:36 , PIO C:1048 , HOH C:2050 , HOH C:2058 , PIO F:1048 , LYS H:36 , LYS J:4 , HIS J:33 , SER J:35 , LYS J:36 , ILE J:37 , LEU J:38 , ARG J:40 , HOH J:2048 , HOH J:2057
BINDING SITE FOR RESIDUE PIO J1048
03
AC3
SOFTWARE
ARG A:40 , PIO A:1048 , HOH A:2075 , HOH A:2079 , LYS C:4 , HIS C:33 , SER C:35 , LYS C:36 , ILE C:37 , LEU C:38 , ARG C:40 , HOH C:2057 , HOH C:2058 , PIO D:1048 , LYS G:36 , LYS J:36 , PIO J:1048
BINDING SITE FOR RESIDUE PIO C1048
04
AC4
SOFTWARE
LYS A:36 , PIO A:1048 , HOH A:2060 , HOH A:2074 , ARG D:40 , PIO D:1048 , HOH D:2062 , HOH D:2069 , PIO E:1048 , LYS G:4 , HIS G:33 , SER G:35 , LYS G:36 , ILE G:37 , LEU G:38 , ARG G:40 , HOH G:2059 , HOH G:2060 , LYS N:36
BINDING SITE FOR RESIDUE PIO G1048
05
AC5
SOFTWARE
LYS B:36 , ILE B:37 , LYS F:4 , HIS F:33 , SER F:35 , LYS F:36 , ILE F:37 , LEU F:38 , ARG F:40 , HOH F:2053 , HOH F:2059 , HOH F:2062 , HOH F:2063 , HOH F:2064 , ARG H:40 , PIO H:1048 , PIO J:1048 , LYS K:36 , PIO K:1048
BINDING SITE FOR RESIDUE PIO F1048
06
AC6
SOFTWARE
LYS A:36 , PIO C:1048 , LYS D:4 , HIS D:33 , SER D:35 , LYS D:36 , ILE D:37 , LEU D:38 , ARG D:40 , HOH D:2053 , HOH D:2063 , HOH D:2064 , HOH D:2065 , HOH D:2066 , HOH D:2069 , ARG G:40 , PIO G:1048 , LYS N:36 , PIO N:1048
BINDING SITE FOR RESIDUE PIO D1048
07
AC7
SOFTWARE
LYS B:36 , PIO B:1048 , HOH B:2067 , HOH B:2068 , ILE F:37 , ARG F:40 , PIO F:1048 , HOH F:2059 , HOH F:2061 , HOH F:2064 , LYS H:4 , HIS H:33 , SER H:35 , LYS H:36 , ILE H:37 , LEU H:38 , ARG H:40 , HOH H:2053 , HOH H:2054 , PIO I:1048 , LYS K:36
BINDING SITE FOR RESIDUE PIO H1048
08
AC8
SOFTWARE
ILE B:15 , LEU B:38 , ARG C:39 , LYS D:36 , PIO D:1048 , HOH D:2063 , HOH D:2067 , HOH D:2068 , ARG E:40 , PIO E:1048 , HOH E:2006 , HOH E:2053 , LYS N:4 , HIS N:33 , SER N:35 , LYS N:36 , ILE N:37 , LEU N:38 , HOH N:2040 , HOH N:2041
BINDING SITE FOR RESIDUE PIO N1048
09
AC9
SOFTWARE
ILE B:37 , LYS D:36 , LYS E:4 , HIS E:33 , SER E:35 , LYS E:36 , ILE E:37 , LEU E:38 , ARG E:40 , HOH E:2006 , HOH E:2051 , HOH E:2052 , PIO G:1048 , ILE N:37 , PIO N:1048
BINDING SITE FOR RESIDUE PIO E1048
10
BC1
SOFTWARE
GLY A:12 , ILE A:13 , HOH A:2016 , LYS I:36 , PIO I:1048 , HOH I:2065 , HOH I:2068 , LYS L:4 , HIS L:33 , SER L:35 , LYS L:36 , ILE L:37 , LEU L:38 , ARG L:40 , HOH L:2048 , HOH L:2049 , HOH L:2050 , HOH L:2051 , LYS M:36 , ARG M:40 , PIO M:1048
BINDING SITE FOR RESIDUE PIO L1048
11
BC2
SOFTWARE
PIO H:1048 , LYS I:4 , HIS I:33 , SER I:35 , LYS I:36 , ILE I:37 , LEU I:38 , ARG I:40 , HOH I:2014 , HOH I:2065 , HOH I:2066 , HOH I:2067 , HOH I:2068 , HOH I:2069 , ARG K:40 , PIO K:1048 , LYS L:36 , PIO L:1048
BINDING SITE FOR RESIDUE PIO I1048
12
BC3
SOFTWARE
LYS F:36 , PIO F:1048 , HOH F:2053 , HOH F:2062 , ARG I:40 , PIO I:1048 , HOH I:2064 , HOH I:2066 , HOH I:2069 , LYS K:4 , HIS K:33 , SER K:35 , LYS K:36 , ILE K:37 , LEU K:38 , ARG K:40 , HOH K:2039 , HOH K:2040 , PIO M:1048
BINDING SITE FOR RESIDUE PIO K1048
13
BC4
SOFTWARE
LYS I:36 , PIO K:1048 , ARG L:40 , PIO L:1048 , HOH L:2048 , LYS M:4 , HIS M:33 , SER M:35 , LYS M:36 , ILE M:37 , LEU M:38 , ARG M:40 , HOH M:2029 , HOH M:2030
BINDING SITE FOR RESIDUE PIO M1048
14
BC5
SOFTWARE
LYS A:4 , HIS A:33 , SER A:35 , LYS A:36 , ILE A:37 , LEU A:38 , ARG A:40 , HOH A:2056 , HOH A:2074 , HOH A:2075 , HOH A:2076 , HOH A:2077 , HOH A:2079 , PIO B:1048 , ILE C:37 , ARG C:40 , PIO C:1048 , LYS G:36 , PIO G:1048 , LYS J:36
BINDING SITE FOR RESIDUE PIO A1048
15
BC6
SOFTWARE
ARG D:1 , CYS D:47 , HOH D:2001 , HOH D:2003 , HOH D:2061 , ASN G:8
BINDING SITE FOR RESIDUE SO4 D1049
16
BC7
SOFTWARE
HOH G:2024 , LYS L:22 , ARG N:21 , HOH N:2042 , HOH N:2043
BINDING SITE FOR RESIDUE SO4 N1049
17
BC8
SOFTWARE
ARG E:39 , HOH E:2029 , HOH E:2046 , HOH E:2054 , GLY F:12 , ILE F:13 , HOH F:2029
BINDING SITE FOR RESIDUE SO4 E1049
18
BC9
SOFTWARE
ASN A:8 , ARG C:1 , CYS C:47 , HOH C:2004 , HOH C:2056 , HOH C:2060 , HOH C:2061 , HOH C:2062
BINDING SITE FOR RESIDUE SO4 C1049
19
CC1
SOFTWARE
LYS C:36 , ILE C:37
BINDING SITE FOR RESIDUE SO4 C1050
20
CC2
SOFTWARE
ASN E:8 , ARG N:1 , CYS N:47 , HOH N:2002
BINDING SITE FOR RESIDUE SO4 N1050
21
CC3
SOFTWARE
LYS A:22 , HOH A:2043 , ARG G:1 , CYS G:47 , HOH G:2003 , HOH G:2058 , HOH G:2062
BINDING SITE FOR RESIDUE SO4 G1049
22
CC4
SOFTWARE
ASN B:8 , HOH B:2027 , HOH C:2041 , ARG J:1 , HOH J:2002 , HOH J:2059
BINDING SITE FOR RESIDUE SO4 J1049
23
CC5
SOFTWARE
ARG A:1 , CYS A:47 , HOH A:2003 , ASN C:8
BINDING SITE FOR RESIDUE SO4 A1049
24
CC6
SOFTWARE
LYS C:22 , ARG F:21 , ASP F:31 , HOH F:2038 , HOH F:2048 , HOH F:2065 , ASN I:8 , ARG K:1
BINDING SITE FOR RESIDUE SO4 F1049
25
CC7
SOFTWARE
ARG I:1 , CYS I:47 , HOH I:2003 , ASN K:8
BINDING SITE FOR RESIDUE SO4 I1049
26
CC8
SOFTWARE
ARG L:1 , CYS L:47 , HOH L:2002 , ASN M:8
BINDING SITE FOR RESIDUE SO4 L1049
27
CC9
SOFTWARE
CYS L:47 , LYS M:45 , HOH M:2027
BINDING SITE FOR RESIDUE SO4 M1049
28
DC1
SOFTWARE
ARG A:21 , HOH A:2045 , HOH A:2081 , HOH A:2082 , ASN D:8
BINDING SITE FOR RESIDUE SO4 A1050
29
DC2
SOFTWARE
HOH B:2044 , ARG E:1 , ASN F:8 , ARG H:1 , CYS H:47 , HOH H:2002
BINDING SITE FOR RESIDUE SO4 H1049
30
DC3
SOFTWARE
LYS D:28 , ARG M:39
BINDING SITE FOR RESIDUE SO4 M1050
31
DC4
SOFTWARE
ASN C:8 , HOH C:2020 , HOH C:2021 , ARG G:21
BINDING SITE FOR RESIDUE SO4 G1050
32
DC5
SOFTWARE
ARG K:21 , HOH K:2041
BINDING SITE FOR RESIDUE SO4 K1049
33
DC6
SOFTWARE
ARG D:39 , LEU E:38
BINDING SITE FOR RESIDUE SO4 E1050
34
DC7
SOFTWARE
HOH K:2012 , ARG L:21 , HOH L:2052 , ILE N:25 , HOH N:2029
BINDING SITE FOR RESIDUE SO4 L1050
35
DC8
SOFTWARE
ARG E:21 , HOH E:2055 , ARG H:21 , HOH H:2012 , HOH J:2018
BINDING SITE FOR RESIDUE MRD E1051
36
DC9
SOFTWARE
ARG B:1 , HOH B:2002 , HOH B:2003 , THR E:30 , HOH E:2037 , HOH E:2043 , ARG H:21 , ASN J:8
BINDING SITE FOR RESIDUE MRD E1052
37
EC1
SOFTWARE
LYS A:28 , LYS A:45 , HOH A:2071 , HOH A:2072 , LYS C:45 , HOH C:2055
BINDING SITE FOR RESIDUE MRD A1051
38
EC2
SOFTWARE
LYS B:22 , HOH B:2048 , ARG F:1 , HOH F:2002 , HOH F:2003 , ASN H:8 , ARG K:21 , THR K:30
BINDING SITE FOR RESIDUE MRD F1050
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 14)
Info
All PROSITE Patterns/Profiles
1: GAMMA_THIONIN (A:1-24,B:1-24,C:1-24,D:1-24,E:1-24...)
;
View:
Select:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GAMMA_THIONIN
PS00940
Gamma-thionins family signature.
DEF_NICAL
26-49
14
A:1-24
B:1-24
C:1-24
D:1-24
E:1-24
F:1-24
G:1-24
H:1-24
I:1-24
J:1-24
K:1-24
L:1-24
M:1-24
N:1-24
[
close PROSITE info
]
Exons
(0, 0)
Info
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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
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CATH Domains
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all CATH domains
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Pfam Domains
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