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2OJW
Biol. Unit 1
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Asym.Unit (334 KB)
Biol.Unit 1 (630 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN GLUTAMINE SYNTHETASE IN COMPLEX WITH ADP AND PHOSPHATE
Authors
:
T. Karlberg, J. Uppenberg, C. Arrowsmith, H. Berglund, R. D. Busam, R. C A. Edwards, S. Flodin, A. Flores, S. Graslund, B. M. Hallberg, M. Hamma M. Hogbom, I. Johansson, T. Kotenyova, M. Moche, M. E. Nilsson, P. Nord T. Nyman, D. Ogg, C. Persson, J. Sagemark, P. Stenmark, M. Sundstrom, A. G. Thorsell, S. Van Den Berg, K. Wallden, J. Weigelt, L. Holmberg- Schiavone, Structural Genomics Consortium (Sgc)
Date
:
15 Jan 07 (Deposition) - 13 Mar 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.05
Chains
:
Asym. Unit : A,B,C,D,E
Biol. Unit 1: A,B,C,D,E (2x)
Keywords
:
Amino-Acid Biosynthesis, Ligase, Synthetase, Structural Genomics, Structural Genomics Consortium, Sgc
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
W. W. Krajewski, R. Collins, L. Holmberg-Schiavone, T. A. Jones, T. Karlberg, S. L. Mowbray
Crystal Structures Of Mammalian Glutamine Synthetases Illustrate Substrate-Induced Conformational Changes And Provide Opportunities For Drug And Herbicide Design.
J. Mol. Biol. V. 375 217 2008
[
close entry info
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Hetero Components
(3, 32)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
1c: ADENOSINE-5'-DIPHOSPHATE (ADPc)
1d: ADENOSINE-5'-DIPHOSPHATE (ADPd)
1e: ADENOSINE-5'-DIPHOSPHATE (ADPe)
2a: CHLORIDE ION (CLa)
2b: CHLORIDE ION (CLb)
2c: CHLORIDE ION (CLc)
2d: CHLORIDE ION (CLd)
2e: CHLORIDE ION (CLe)
3a: GLYCEROL (GOLa)
3b: GLYCEROL (GOLb)
3c: GLYCEROL (GOLc)
3d: GLYCEROL (GOLd)
3e: GLYCEROL (GOLe)
3f: GLYCEROL (GOLf)
4a: MANGANESE (II) ION (MNa)
4b: MANGANESE (II) ION (MNb)
4c: MANGANESE (II) ION (MNc)
4d: MANGANESE (II) ION (MNd)
4e: MANGANESE (II) ION (MNe)
4f: MANGANESE (II) ION (MNf)
4g: MANGANESE (II) ION (MNg)
4h: MANGANESE (II) ION (MNh)
4i: MANGANESE (II) ION (MNi)
4j: MANGANESE (II) ION (MNj)
4k: MANGANESE (II) ION (MNk)
4l: MANGANESE (II) ION (MNl)
4m: MANGANESE (II) ION (MNm)
4n: MANGANESE (II) ION (MNn)
4o: MANGANESE (II) ION (MNo)
4p: MANGANESE (II) ION (MNp)
4q: MANGANESE (II) ION (MNq)
4r: MANGANESE (II) ION (MNr)
4s: MANGANESE (II) ION (MNs)
4t: MANGANESE (II) ION (MNt)
5a: PHOSPHATE ION (PO4a)
5b: PHOSPHATE ION (PO4b)
5c: PHOSPHATE ION (PO4c)
5d: PHOSPHATE ION (PO4d)
5e: PHOSPHATE ION (PO4e)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADP
10
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
CL
-1
Ligand/Ion
CHLORIDE ION
3
GOL
12
Ligand/Ion
GLYCEROL
4
MN
-1
Ligand/Ion
MANGANESE (II) ION
5
PO4
10
Ligand/Ion
PHOSPHATE ION
[
close Hetero Component info
]
Sites
(41, 41)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLU A:136 , GLU A:196 , GLU A:203 , MN A:404 , PO4 A:502 , HOH A:1686
BINDING SITE FOR RESIDUE MN A 401
02
AC2
SOFTWARE
GLU A:134 , HIS A:253 , GLU A:338 , ARG A:340 , ADP A:501 , PO4 A:502
BINDING SITE FOR RESIDUE MN A 402
03
AC3
SOFTWARE
GLU A:134 , GLU A:203 , ADP A:501 , PO4 A:502 , HOH A:1635
BINDING SITE FOR RESIDUE MN A 403
04
AC4
SOFTWARE
GLU A:196 , MN A:401 , PO4 A:502 , HOH A:1729 , HOH A:1730 , HOH A:1731
BINDING SITE FOR RESIDUE MN A 404
05
AC5
SOFTWARE
GLU A:134 , GLU A:136 , GLU A:196 , GLU A:203 , HIS A:253 , ARG A:319 , GLU A:338 , ARG A:340 , MN A:401 , MN A:402 , MN A:403 , MN A:404 , ADP A:501 , HOH A:1686 , HOH A:1730 , HOH A:1786
BINDING SITE FOR RESIDUE PO4 A 502
06
AC6
SOFTWARE
GLU B:136 , GLU B:196 , GLU B:203 , MN B:404 , PO4 B:502 , HOH B:1747
BINDING SITE FOR RESIDUE MN B 401
07
AC7
SOFTWARE
GLU B:134 , HIS B:253 , GLU B:338 , ARG B:340 , ADP B:501 , PO4 B:502
BINDING SITE FOR RESIDUE MN B 402
08
AC8
SOFTWARE
GLU B:134 , GLU B:203 , ADP B:501 , PO4 B:502 , HOH B:1616
BINDING SITE FOR RESIDUE MN B 403
09
AC9
SOFTWARE
GLU B:196 , MN B:401 , PO4 B:502 , HOH B:1730 , HOH B:1738 , HOH B:1739 , HOH B:1740
BINDING SITE FOR RESIDUE MN B 404
10
BC1
SOFTWARE
GLU B:134 , GLU B:136 , GLU B:196 , GLU B:203 , HIS B:253 , ARG B:319 , GLU B:338 , ARG B:340 , MN B:401 , MN B:402 , MN B:403 , MN B:404 , ADP B:501 , HOH B:1616 , HOH B:1740
BINDING SITE FOR RESIDUE PO4 B 502
11
BC2
SOFTWARE
GLU C:136 , GLU C:196 , GLU C:203 , MN C:404 , PO4 C:502 , HOH C:1745
BINDING SITE FOR RESIDUE MN C 401
12
BC3
SOFTWARE
GLU C:134 , HIS C:253 , GLU C:338 , ARG C:340 , ADP C:501 , PO4 C:502
BINDING SITE FOR RESIDUE MN C 402
13
BC4
SOFTWARE
GLU C:134 , GLU C:203 , ADP C:501 , PO4 C:502 , HOH C:1604
BINDING SITE FOR RESIDUE MN C 403
14
BC5
SOFTWARE
HOH B:1741 , GLU C:196 , MN C:401 , PO4 C:502 , HOH C:1718 , HOH C:1719
BINDING SITE FOR RESIDUE MN C 404
15
BC6
SOFTWARE
HOH B:1741 , GLU C:134 , GLU C:136 , GLU C:196 , GLU C:203 , HIS C:253 , ARG C:319 , GLU C:338 , ARG C:340 , MN C:401 , MN C:402 , MN C:403 , MN C:404 , ADP C:501 , HOH C:1707 , HOH C:1718 , HOH C:1745
BINDING SITE FOR RESIDUE PO4 C 502
16
BC7
SOFTWARE
GLU D:136 , GLU D:196 , GLU D:203 , MN D:404 , PO4 D:502 , HOH D:1741
BINDING SITE FOR RESIDUE MN D 401
17
BC8
SOFTWARE
GLU D:134 , HIS D:253 , GLU D:338 , ARG D:340 , ADP D:501 , PO4 D:502
BINDING SITE FOR RESIDUE MN D 402
18
BC9
SOFTWARE
GLU D:134 , GLU D:203 , ADP D:501 , PO4 D:502 , HOH D:1615
BINDING SITE FOR RESIDUE MN D 403
19
CC1
SOFTWARE
GLU D:196 , MN D:401 , PO4 D:502 , HOH D:1609 , HOH D:1739 , HOH D:1740
BINDING SITE FOR RESIDUE MN D 404
20
CC2
SOFTWARE
GLU D:134 , GLU D:136 , GLU D:196 , GLU D:203 , HIS D:253 , ARG D:319 , GLU D:338 , ARG D:340 , MN D:401 , MN D:402 , MN D:403 , MN D:404 , ADP D:501 , HOH D:1598 , HOH D:1739 , HOH D:1740 , HOH D:1741
BINDING SITE FOR RESIDUE PO4 D 502
21
CC3
SOFTWARE
GLU E:136 , GLU E:196 , GLU E:203 , MN E:404 , PO4 E:502 , HOH E:1666
BINDING SITE FOR RESIDUE MN E 401
22
CC4
SOFTWARE
GLU E:134 , HIS E:253 , GLU E:338 , ARG E:340 , ADP E:501 , PO4 E:502
BINDING SITE FOR RESIDUE MN E 402
23
CC5
SOFTWARE
GLU E:134 , GLU E:203 , ADP E:501 , PO4 E:502 , HOH E:1609
BINDING SITE FOR RESIDUE MN E 403
24
CC6
SOFTWARE
GLU E:136 , GLU E:196 , MN E:401 , PO4 E:502 , HOH E:1611 , HOH E:1716 , HOH E:1717
BINDING SITE FOR RESIDUE MN E 404
25
CC7
SOFTWARE
GLU E:134 , GLU E:136 , GLU E:196 , GLU E:203 , HIS E:253 , ARG E:319 , GLU E:338 , ARG E:340 , MN E:401 , MN E:402 , MN E:403 , MN E:404 , ADP E:501 , HOH E:1699 , HOH E:1716
BINDING SITE FOR RESIDUE PO4 E 502
26
CC8
SOFTWARE
THR B:44 , THR C:193
BINDING SITE FOR RESIDUE CL B 1401
27
CC9
SOFTWARE
MET C:29 , THR C:44 , THR D:193
BINDING SITE FOR RESIDUE CL C 1402
28
DC1
SOFTWARE
THR A:193 , THR E:44
BINDING SITE FOR RESIDUE CL A 1403
29
DC2
SOFTWARE
THR D:44 , THR E:193 , HOH E:1531
BINDING SITE FOR RESIDUE CL D 1404
30
DC3
SOFTWARE
THR A:44 , THR B:193
BINDING SITE FOR RESIDUE CL A 1405
31
DC4
SOFTWARE
TRP A:130 , GLY A:132 , GLU A:134 , GLU A:203 , GLN A:205 , GLY A:207 , PRO A:208 , ASN A:255 , SER A:257 , ARG A:319 , ARG A:324 , TYR A:336 , GLU A:338 , MN A:402 , MN A:403 , PO4 A:502 , HOH A:1540 , HOH A:1587 , HOH A:1619 , HOH A:1620 , HOH A:1635 , HOH A:1664 , HOH E:1513
BINDING SITE FOR RESIDUE ADP A 501
32
DC5
SOFTWARE
HOH A:1575 , TRP B:130 , GLY B:132 , GLU B:134 , GLU B:203 , GLN B:205 , GLY B:207 , PRO B:208 , ASN B:255 , SER B:257 , ARG B:319 , ARG B:324 , TYR B:336 , GLU B:338 , MN B:402 , MN B:403 , PO4 B:502 , HOH B:1560 , HOH B:1570 , HOH B:1589 , HOH B:1616 , HOH B:1693 , HOH B:1753
BINDING SITE FOR RESIDUE ADP B 501
33
DC6
SOFTWARE
TRP C:130 , GLY C:132 , GLU C:134 , GLU C:203 , GLN C:205 , GLY C:207 , PRO C:208 , ASN C:255 , SER C:257 , ARG C:319 , ARG C:324 , TYR C:336 , GLU C:338 , MN C:402 , MN C:403 , PO4 C:502 , HOH C:1584 , HOH C:1600 , HOH C:1603 , HOH C:1604 , HOH C:1656 , HOH C:1674 , HOH C:1681
BINDING SITE FOR RESIDUE ADP C 501
34
DC7
SOFTWARE
TRP D:130 , GLY D:132 , GLU D:134 , GLU D:203 , GLN D:205 , GLY D:207 , PRO D:208 , ASN D:255 , SER D:257 , ARG D:319 , ARG D:324 , TYR D:336 , GLU D:338 , MN D:402 , MN D:403 , PO4 D:502 , HOH D:1585 , HOH D:1597 , HOH D:1615 , HOH D:1628 , HOH D:1631 , HOH D:1636 , HOH D:1716 , HOH D:1750
BINDING SITE FOR RESIDUE ADP D 501
35
DC8
SOFTWARE
HOH D:1617 , TRP E:130 , GLY E:132 , GLU E:134 , GLU E:203 , GLN E:205 , GLY E:207 , PRO E:208 , ASN E:255 , SER E:257 , ARG E:262 , ARG E:319 , ARG E:324 , TYR E:336 , GLU E:338 , MN E:402 , MN E:403 , PO4 E:502 , HOH E:1540 , HOH E:1555 , HOH E:1609 , HOH E:1636 , HOH E:1644
BINDING SITE FOR RESIDUE ADP E 501
36
DC9
SOFTWARE
LYS A:14 , PRO A:88 , PHE A:89 , HOH A:1543 , HOH A:1665 , HOH A:1694
BINDING SITE FOR RESIDUE GOL A 1501
37
EC1
SOFTWARE
TYR A:17 , LYS B:14 , PRO B:88 , PHE B:89 , HOH B:1548 , HOH B:1674 , HOH B:1748 , HOH B:1756
BINDING SITE FOR RESIDUE GOL B 1502
38
EC2
SOFTWARE
LYS C:14 , PRO C:88 , PHE C:89 , HOH C:1557 , HOH C:1734
BINDING SITE FOR RESIDUE GOL C 1503
39
EC3
SOFTWARE
LYS D:14 , PRO D:88 , PHE D:89 , HOH D:1601 , HOH D:1752
BINDING SITE FOR RESIDUE GOL D 1504
40
EC4
SOFTWARE
VAL D:16 , LYS E:14 , PRO E:88 , PHE E:89 , HOH E:1557 , HOH E:1594 , HOH E:1642
BINDING SITE FOR RESIDUE GOL E 1505
41
EC5
SOFTWARE
ALA C:82 , SER C:213 , ASP C:216 , HIS C:217 , HOH C:1781
BINDING SITE FOR RESIDUE GOL C 1506
[
close Site info
]
SAPs(SNPs)/Variants
(2, 20)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_026560 (R324C, chain A/B/C/D/E, )
2: VAR_026561 (R341C, chain A/B/C/D/E, )
View:
Select:
Label:
dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_026560
R
324
C
GLNA_HUMAN
Disease (CSGD)
---
A/B/C/D/E
R
324
C
2
UniProt
VAR_026561
R
341
C
GLNA_HUMAN
Disease (CSGD)
---
A/B/C/D/E
R
341
C
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(2, 20)
Info
All PROSITE Patterns/Profiles
1: GLNA_1 (A:62-79,B:62-79,C:62-79,D:62-79,E:...)
2: GLNA_ATP (A:241-257,B:241-257,C:241-257,D:24...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GLNA_1
PS00180
Glutamine synthetase signature 1.
GLNA_HUMAN
62-79
10
A:62-79
B:62-79
C:62-79
D:62-79
E:62-79
2
GLNA_ATP
PS00181
Glutamine synthetase putative ATP-binding region signature.
GLNA_HUMAN
241-257
10
A:241-257
B:241-257
C:241-257
D:241-257
E:241-257
[
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]
Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
(0, 0)
Info
All SCOP Domains
View:
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Sorry, no Info available
[
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CATH Domains
(0, 0)
Info
all CATH domains
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Label:
Sorry, no Info available
[
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Pfam Domains
(2, 10)
Info
all PFAM domains
1a: PFAM_Gln_synt_C_2ojwE01 (E:110-359)
1b: PFAM_Gln_synt_C_2ojwE02 (E:110-359)
1c: PFAM_Gln_synt_C_2ojwE03 (E:110-359)
1d: PFAM_Gln_synt_C_2ojwE04 (E:110-359)
1e: PFAM_Gln_synt_C_2ojwE05 (E:110-359)
2a: PFAM_Gln_synt_N_2ojwE06 (E:24-104)
2b: PFAM_Gln_synt_N_2ojwE07 (E:24-104)
2c: PFAM_Gln_synt_N_2ojwE08 (E:24-104)
2d: PFAM_Gln_synt_N_2ojwE09 (E:24-104)
2e: PFAM_Gln_synt_N_2ojwE10 (E:24-104)
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Clans
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)
(
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Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
GCS
(23)
Family
:
Gln-synt_C
(3)
Homo sapiens (Human)
(2)
1a
Gln-synt_C-2ojwE01
E:110-359
1b
Gln-synt_C-2ojwE02
E:110-359
1c
Gln-synt_C-2ojwE03
E:110-359
1d
Gln-synt_C-2ojwE04
E:110-359
1e
Gln-synt_C-2ojwE05
E:110-359
Clan
:
no clan defined [family: Gln-synt_N]
(2)
Family
:
Gln-synt_N
(2)
Homo sapiens (Human)
(2)
2a
Gln-synt_N-2ojwE06
E:24-104
2b
Gln-synt_N-2ojwE07
E:24-104
2c
Gln-synt_N-2ojwE08
E:24-104
2d
Gln-synt_N-2ojwE09
E:24-104
2e
Gln-synt_N-2ojwE10
E:24-104
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