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2DDB
Biol. Unit 3
Info
Asym.Unit (157 KB)
Biol.Unit 1 (42 KB)
Biol.Unit 2 (41 KB)
Biol.Unit 3 (42 KB)
Biol.Unit 4 (40 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PSEUDECIN FROM PSEUDECHIS PORPHYRIACUS
Authors
:
N. Suzuki, Y. Yamazaki, Z. Fujimoto, T. Morita, H. Mizuno
Date
:
25 Jan 06 (Deposition) - 30 Jan 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Biol. Unit 4: D (1x)
Keywords
:
Crisp, Snake Venom, Cng Channel, Toxin
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
N. Suzuki, Y. Yamazaki, R. L. Brown, Z. Fujimoto, T. Morita, H. Mizuno
Structures Of Pseudechetoxin And Pseudecin, Two Snake-Venom Cysteine-Rich Secretory Proteins That Target Cyclic Nucleotide-Gated Ion Channels: Implications For Movement Of The C-Terminal Cysteine-Rich Domain
Acta Crystallogr. , Sect. D V. 64 1034 2008
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Hetero Components
(2, 9)
Info
All Hetero Components
1a: FORMIC ACID (FMTa)
1b: FORMIC ACID (FMTb)
1c: FORMIC ACID (FMTc)
1d: FORMIC ACID (FMTd)
1e: FORMIC ACID (FMTe)
1f: FORMIC ACID (FMTf)
1g: FORMIC ACID (FMTg)
1h: FORMIC ACID (FMTh)
1i: FORMIC ACID (FMTi)
1j: FORMIC ACID (FMTj)
1k: FORMIC ACID (FMTk)
1l: FORMIC ACID (FMTl)
1m: FORMIC ACID (FMTm)
1n: FORMIC ACID (FMTn)
1o: FORMIC ACID (FMTo)
1p: FORMIC ACID (FMTp)
1q: FORMIC ACID (FMTq)
1r: FORMIC ACID (FMTr)
1s: FORMIC ACID (FMTs)
1t: FORMIC ACID (FMTt)
1u: FORMIC ACID (FMTu)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
2f: GLYCEROL (GOLf)
3a: SODIUM ION (NAa)
3b: SODIUM ION (NAb)
3c: SODIUM ION (NAc)
3d: SODIUM ION (NAd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
FMT
8
Ligand/Ion
FORMIC ACID
2
GOL
1
Ligand/Ion
GLYCEROL
3
NA
-1
Ligand/Ion
SODIUM ION
[
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Sites
(13, 13)
Info
All Sites
01: AC2 (SOFTWARE)
02: AC7 (SOFTWARE)
03: AC9 (SOFTWARE)
04: BC1 (SOFTWARE)
05: BC4 (SOFTWARE)
06: BC9 (SOFTWARE)
07: CC1 (SOFTWARE)
08: CC3 (SOFTWARE)
09: CC4 (SOFTWARE)
10: CC5 (SOFTWARE)
11: CC7 (SOFTWARE)
12: CC8 (SOFTWARE)
13: CC9 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC2
SOFTWARE
SER C:72 , GLN C:73 , SER C:127 , GOL C:326 , HOH C:1000
BINDING SITE FOR RESIDUE NA C 302
02
AC7
SOFTWARE
VAL B:103 , ILE B:104 , GLY B:105 , HOH B:1008 , SER C:183 , LYS C:186
BINDING SITE FOR RESIDUE FMT B 307
03
AC9
SOFTWARE
SER B:183 , LYS B:186 , SER C:102 , VAL C:103 , ILE C:104 , GLY C:105
BINDING SITE FOR RESIDUE FMT C 309
04
BC1
SOFTWARE
VAL C:20 , LYS C:21 , TYR C:85 , ILE C:88 , TYR C:107 , HOH C:693
BINDING SITE FOR RESIDUE FMT C 310
05
BC4
SOFTWARE
LYS C:12 , LEU C:16
BINDING SITE FOR RESIDUE FMT C 313
06
BC9
SOFTWARE
ASN C:33
BINDING SITE FOR RESIDUE FMT C 318
07
CC1
SOFTWARE
ASN C:173 , LYS C:208 , HOH C:751
BINDING SITE FOR RESIDUE FMT C 319
08
CC3
SOFTWARE
LYS C:124 , SER C:127 , GOL C:326 , SER D:102 , VAL D:103
BINDING SITE FOR RESIDUE FMT C 321
09
CC4
SOFTWARE
SER C:102 , VAL C:103 , LYS D:124 , SER D:127 , GOL D:327 , HOH D:945 , HOH D:959
BINDING SITE FOR RESIDUE FMT D 322
10
CC5
SOFTWARE
LYS C:182 , SER C:202
BINDING SITE FOR RESIDUE FMT C 323
11
CC7
SOFTWARE
ASP C:11 , ALA C:15 , ARG C:18 , HOH C:453 , HOH C:863
BINDING SITE FOR RESIDUE FMT C 325
12
CC8
SOFTWARE
SER C:72 , GLN C:73 , PRO C:74 , SER C:127 , TYR C:130 , NA C:302 , FMT C:321 , HOH C:501 , HOH C:791 , GLU D:87 , VAL D:103
BINDING SITE FOR RESIDUE GOL C 326
13
CC9
SOFTWARE
GLU C:87 , VAL C:103 , SER D:72 , GLN D:73 , PRO D:74 , SER D:127 , TYR D:130 , NA D:304 , FMT D:322 , HOH D:771 , HOH D:959
BINDING SITE FOR RESIDUE GOL D 327
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
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Sorry, no Info available
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PROSITE Patterns/Profiles
(3, 3)
Info
All PROSITE Patterns/Profiles
1: CRISP_1 (C:105-115)
2: CRISP_2 (C:131-142)
3: SHKT (C:172-205)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CRISP_1
PS01009
CRISP family signature 1.
CRVP_PSEPO
133-143
1
-
-
C:105-115
-
2
CRISP_2
PS01010
CRISP family signature 2.
CRVP_PSEPO
159-170
1
-
-
C:131-142
-
3
SHKT
PS51670
ShKT domain profile.
CRVP_PSEPO
200-233
1
-
-
C:172-205
-
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 8)
Info
All SCOP Domains
1a: SCOP_d2ddba1 (A:4-153)
1b: SCOP_d2ddbb1 (B:2-153)
1c: SCOP_d2ddbc1 (C:4-153)
1d: SCOP_d2ddbd1 (D:2-153)
2a: SCOP_d2ddba2 (A:154-210)
2b: SCOP_d2ddbb2 (B:154-210)
2c: SCOP_d2ddbc2 (C:154-210)
2d: SCOP_d2ddbd2 (D:154-210)
View:
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Classes
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)
(
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Folds
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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)
(23004)
Fold
:
PR-1-like
(14)
Superfamily
:
PR-1-like
(14)
Family
:
automated matches
(4)
Protein domain
:
automated matches
(4)
Pseudechis porphyriacus [TaxId: 8671]
(2)
1a
d2ddba1
A:4-153
1b
d2ddbb1
B:2-153
1c
d2ddbc1
C:4-153
1d
d2ddbd1
D:2-153
Class
:
Small proteins
(3458)
Fold
:
Crisp domain-like
(13)
Superfamily
:
Crisp domain-like
(13)
Family
:
automated matches
(8)
Protein domain
:
automated matches
(8)
Pseudechis porphyriacus [TaxId: 8671]
(2)
2a
d2ddba2
A:154-210
2b
d2ddbb2
B:154-210
2c
d2ddbc2
C:154-210
2d
d2ddbd2
D:154-210
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_2ddbB01 (B:2-169)
1b: CATH_2ddbD01 (D:2-169)
1c: CATH_2ddbA01 (A:4-169)
1d: CATH_2ddbC01 (C:4-169)
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Architectures
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Topologies
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)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Pathogenesis-related Protein p14a
(12)
Homologous Superfamily
:
Pathogenesis-related Protein p14a
(12)
Red-bellied black snake (Pseudechis porphyriacus)
(2)
1a
2ddbB01
B:2-169
1b
2ddbD01
D:2-169
1c
2ddbA01
A:4-169
1d
2ddbC01
C:4-169
[
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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Atom Selection
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Protein
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All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain C
Asymmetric Unit 1
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Asym.Unit (157 KB)
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