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Asym. Unit
Info
Asym.Unit (387 KB)
Biol.Unit 1 (193 KB)
Biol.Unit 2 (192 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PEA PROLEGUMIN, AN 11S SEED GLOBULIN FROM PISUM SATIVUM L.
Authors
:
M. R. G. Tandang-Silvas, T. Fukuda, C. Fukuda, K. Prak, C. Cabanos, A. Ki T. Itoh, B. Mikami, N. Maruyama, S. Utsumi
Date
:
21 Nov 09 (Deposition) - 21 Apr 10 (Release) - 11 Dec 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.61
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C (1x)
Biol. Unit 2: D,E,F (1x)
Keywords
:
Pea Prolegumin, 11S Seed Storage Protein, Pisum Sativum L. , Seed Storage Protein, Storage Protein, Plant Protein
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. R. Tandang-Silvas, T. Fukuda, C. Fukuda, K. Prak, C. Cabanos, A. Kimura, T. Itoh, B. Mikami, S. Utsumi, N. Maruyama
Conservation And Divergence On Plant Seed 11S Globulins Based On Crystal Structures.
Biochim. Biophys. Acta V. 1804 1432 2010
[
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Hetero Components
(2, 31)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
1f: GLYCEROL (GOLf)
1g: GLYCEROL (GOLg)
1h: GLYCEROL (GOLh)
1i: GLYCEROL (GOLi)
1j: GLYCEROL (GOLj)
1k: GLYCEROL (GOLk)
1l: GLYCEROL (GOLl)
1m: GLYCEROL (GOLm)
1n: GLYCEROL (GOLn)
1o: GLYCEROL (GOLo)
1p: GLYCEROL (GOLp)
1q: GLYCEROL (GOLq)
1r: GLYCEROL (GOLr)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
2i: SULFATE ION (SO4i)
2j: SULFATE ION (SO4j)
2k: SULFATE ION (SO4k)
2l: SULFATE ION (SO4l)
2m: SULFATE ION (SO4m)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
18
Ligand/Ion
GLYCEROL
2
SO4
13
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(31, 31)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PRO A:328 , HIS A:362 , LYS A:387 , HOH A:512
BINDING SITE FOR RESIDUE SO4 A 497
02
AC2
SOFTWARE
LYS A:195 , ARG A:196 , HOH A:509
BINDING SITE FOR RESIDUE SO4 A 498
03
AC3
SOFTWARE
ARG A:115 , ARG A:323 , ASN A:325 , TYR D:78
BINDING SITE FOR RESIDUE GOL A 499
04
AC4
SOFTWARE
ARG A:389 , SER A:427 , ASP A:428
BINDING SITE FOR RESIDUE GOL A 500
05
AC5
SOFTWARE
TYR B:335 , ARG B:341 , HIS B:366 , HOH B:555 , ARG E:55 , LYS E:229
BINDING SITE FOR RESIDUE SO4 B 497
06
AC6
SOFTWARE
ASN B:22 , ARG B:23 , ASN D:35 , ASN D:38
BINDING SITE FOR RESIDUE SO4 B 498
07
AC7
SOFTWARE
ARG B:55 , LYS B:229 , HOH B:557 , TYR E:335 , ARG E:341 , HIS E:366
BINDING SITE FOR RESIDUE SO4 B 499
08
AC8
SOFTWARE
ARG B:115 , LYS B:321 , ARG B:323 , LEU B:324 , ASN B:325
BINDING SITE FOR RESIDUE SO4 B 500
09
AC9
SOFTWARE
ARG B:429 , GLN E:54 , LYS E:227
BINDING SITE FOR RESIDUE SO4 B 501
10
BC1
SOFTWARE
GLU B:184 , LYS B:195 , ARG B:196 , ARG B:216 , HOH B:564
BINDING SITE FOR RESIDUE SO4 B 502
11
BC2
SOFTWARE
ASN B:76 , ARG B:113 , GLN B:134 , ASN E:76 , ARG E:113 , ARG E:115
BINDING SITE FOR RESIDUE GOL B 503
12
BC3
SOFTWARE
GLY B:327 , PRO B:328 , ARG B:341 , HIS B:362 , SER B:364 , ARG B:429 , SER B:431 , ARG E:55 , ASP E:135
BINDING SITE FOR RESIDUE GOL B 504
13
BC4
SOFTWARE
ARG B:389 , SER B:427 , HOH B:551
BINDING SITE FOR RESIDUE GOL B 505
14
BC5
SOFTWARE
SER B:49 , ARG B:50 , ALA B:51 , ARG B:59 , TYR B:62 , ILE B:70 , ALA B:140 , SER B:142 , ARG B:159
BINDING SITE FOR RESIDUE GOL B 506
15
BC6
SOFTWARE
GLN B:54 , ARG B:55 , LYS B:227 , LYS E:387 , ARG E:429
BINDING SITE FOR RESIDUE GOL B 507
16
BC7
SOFTWARE
ARG C:389 , SER C:427
BINDING SITE FOR RESIDUE SO4 C 497
17
BC8
SOFTWARE
LYS C:195 , ARG C:196 , ASP C:197 , ARG C:216 , HOH C:563
BINDING SITE FOR RESIDUE SO4 C 498
18
BC9
SOFTWARE
VAL C:317 , ALA C:320 , LYS C:321 , PRO C:351 , HOH C:526
BINDING SITE FOR RESIDUE GOL C 499
19
CC1
SOFTWARE
GLU C:361 , HIS C:374 , ASN C:376 , SER C:381 , TYR C:432 , LYS C:436
BINDING SITE FOR RESIDUE GOL C 500
20
CC2
SOFTWARE
ARG C:115 , ARG C:323 , ASN C:325
BINDING SITE FOR RESIDUE GOL C 501
21
CC3
SOFTWARE
ARG C:196 , ARG C:207
BINDING SITE FOR RESIDUE GOL C 502
22
CC4
SOFTWARE
LYS D:195 , ARG D:196 , HOH D:553
BINDING SITE FOR RESIDUE SO4 D 497
23
CC5
SOFTWARE
SER A:236 , ARG D:115 , LYS D:321 , ARG D:323 , ASN D:325 , HOH D:549 , HOH D:555
BINDING SITE FOR RESIDUE GOL D 498
24
CC6
SOFTWARE
ARG D:389 , SER D:427 , ASP D:428
BINDING SITE FOR RESIDUE GOL D 499
25
CC7
SOFTWARE
ARG A:55 , GLY D:327 , PRO D:328 , HIS D:362 , SER D:431
BINDING SITE FOR RESIDUE GOL D 500
26
CC8
SOFTWARE
ASN E:35 , ASN E:37 , TYR E:173
BINDING SITE FOR RESIDUE SO4 E 497
27
CC9
SOFTWARE
LYS E:195 , ARG E:196 , ARG E:216
BINDING SITE FOR RESIDUE SO4 E 498
28
DC1
SOFTWARE
ARG E:115 , LYS E:321 , ARG E:323 , LEU E:324 , ASN E:325
BINDING SITE FOR RESIDUE GOL E 499
29
DC2
SOFTWARE
ARG F:389 , SER F:427 , ASP F:428
BINDING SITE FOR RESIDUE GOL F 497
30
DC3
SOFTWARE
ARG F:115 , LYS F:321 , ARG F:323 , ASN F:325
BINDING SITE FOR RESIDUE GOL F 498
31
DC4
SOFTWARE
ARG D:391 , LYS F:195
BINDING SITE FOR RESIDUE GOL F 499
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(1, 6)
Info
All PROSITE Patterns/Profiles
1: 11S_SEED_STORAGE (A:316-333,B:316-333,C:316-333,D:31...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
11S_SEED_STORAGE
PS00305
11-S plant seed storage proteins signature.
LEGA_PEA
332-354
6
A:316-333
B:316-333
C:316-333
D:316-333
E:316-333
F:316-333
[
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Exons
(0, 0)
Info
All Exons
View:
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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.
SCOP Domains
(0, 0)
Info
All SCOP Domains
View:
Select:
Label:
Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
View:
Select:
Label:
Sorry, no Info available
[
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Pfam Domains
(1, 12)
Info
all PFAM domains
1a: PFAM_Cupin_1_3kscF01 (F:326-473)
1b: PFAM_Cupin_1_3kscF02 (F:326-473)
1c: PFAM_Cupin_1_3kscF03 (F:326-473)
1d: PFAM_Cupin_1_3kscF04 (F:326-473)
1e: PFAM_Cupin_1_3kscF05 (F:326-473)
1f: PFAM_Cupin_1_3kscF06 (F:326-473)
1g: PFAM_Cupin_1_3kscF07 (F:326-473)
1h: PFAM_Cupin_1_3kscF08 (F:326-473)
1i: PFAM_Cupin_1_3kscF09 (F:326-473)
1j: PFAM_Cupin_1_3kscF10 (F:326-473)
1k: PFAM_Cupin_1_3kscF11 (F:326-473)
1l: PFAM_Cupin_1_3kscF12 (F:326-473)
View:
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Label:
Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
Cupin
(179)
Family
:
Cupin_1
(15)
Pisum sativum (Garden pea)
(1)
1a
Cupin_1-3kscF01
F:326-473
1b
Cupin_1-3kscF02
F:326-473
1c
Cupin_1-3kscF03
F:326-473
1d
Cupin_1-3kscF04
F:326-473
1e
Cupin_1-3kscF05
F:326-473
1f
Cupin_1-3kscF06
F:326-473
1g
Cupin_1-3kscF07
F:326-473
1h
Cupin_1-3kscF08
F:326-473
1i
Cupin_1-3kscF09
F:326-473
1j
Cupin_1-3kscF10
F:326-473
1k
Cupin_1-3kscF11
F:326-473
1l
Cupin_1-3kscF12
F:326-473
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