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1M7H
Biol. Unit 1
Info
Asym.Unit (151 KB)
Biol.Unit 1 (75 KB)
Biol.Unit 2 (74 KB)
Biol.Unit 3 (144 KB)
Biol.Unit 4 (145 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF APS KINASE FROM PENICILLIUM CHRYSOGENUM: STRUCTURE WITH APS SOAKED OUT OF ONE DIMER
Authors
:
E. B. Lansdon, I. H. Sege, A. J. Fisher
Date
:
19 Jul 02 (Deposition) - 27 Nov 02 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Biol. Unit 3: A,B,C,D (1x)
Biol. Unit 4: A,B,C,D (1x)
Keywords
:
Aps Kinase, Adenylylsulfate Kinase, Transferase, Sulfate Metabolism, Nucleotide 2 Kinase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. B. Lansdon, I. H. Segel, A. J. Fisher
Ligand-Induced Structural Changes In Adenosine 5'-Phosphosulfate Kinase From Penicillium Chrysogenum.
Biochemistry V. 41 13672 2002
(for further references see the
PDB file header
)
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Hetero Components
(3, 10)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE (ADPa)
1b: ADENOSINE-5'-DIPHOSPHATE (ADPb)
1c: ADENOSINE-5'-DIPHOSPHATE (ADPc)
1d: ADENOSINE-5'-DIPHOSPHATE (ADPd)
2a: ADENOSINE-5'-PHOSPHOSULFATE (ADXa)
2b: ADENOSINE-5'-PHOSPHOSULFATE (ADXb)
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)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADP
2
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE
2
ADX
1
Ligand/Ion
ADENOSINE-5'-PHOSPHOSULFATE
3
SO4
7
Ligand/Ion
SULFATE ION
[
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Sites
(14, 14)
Info
All Sites
01: AC2 (SOFTWARE)
02: AC3 (SOFTWARE)
03: AC5 (SOFTWARE)
04: AC6 (SOFTWARE)
05: AC7 (SOFTWARE)
06: AC9 (SOFTWARE)
07: BC1 (SOFTWARE)
08: BC2 (SOFTWARE)
09: BC3 (SOFTWARE)
10: BC4 (SOFTWARE)
11: BC5 (SOFTWARE)
12: BC6 (SOFTWARE)
13: BC7 (SOFTWARE)
14: BC8 (SOFTWARE)
View:
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No.
Name
Evidence
Residues
Description
01
AC2
SOFTWARE
ARG A:66 , ARG A:80 , PHE A:105 , ILE A:106 , HOH A:1311 , HOH A:1312 , HOH A:1337 , HOH A:1367
BINDING SITE FOR RESIDUE SO4 A 1002
02
AC3
SOFTWARE
THR B:13 , ARG B:14 , SER B:15 , THR D:13 , ARG D:14 , SER D:15
BINDING SITE FOR RESIDUE SO4 B 1003
03
AC5
SOFTWARE
ARG A:110 , PRO A:175 , ALA A:176 , ASN A:177 , HOH A:1310 , HOH A:1376
BINDING SITE FOR RESIDUE SO4 A 1005
04
AC6
SOFTWARE
HIS A:8 , ALA A:9 , SER A:10 , HOH B:1359
BINDING SITE FOR RESIDUE SO4 A 1006
05
AC7
SOFTWARE
HIS B:8 , ALA B:9 , SER B:10 , ASP C:63
BINDING SITE FOR RESIDUE SO4 B 1007
06
AC9
SOFTWARE
TYR A:172 , GLU A:173 , ALA A:174 , HOH A:1398 , HOH A:1415 , LYS D:156
BINDING SITE FOR RESIDUE SO4 A 1009
07
BC1
SOFTWARE
ASP A:63 , PHE D:7 , HIS D:8 , ALA D:9 , SER D:10
BINDING SITE FOR RESIDUE SO4 D 1010
08
BC2
SOFTWARE
SER B:76 , SER C:76 , GLU C:77 , HOH C:1349
BINDING SITE FOR RESIDUE SO4 C 1011
09
BC3
SOFTWARE
GLU A:77 , HOH A:1386
BINDING SITE FOR RESIDUE SO4 A 1012
10
BC4
SOFTWARE
LEU A:33 , ALA A:35 , SER A:36 , GLY A:37 , LYS A:38 , SER A:39 , THR A:40 , ARG A:148 , PRO A:150 , ASN A:184 , LEU A:187 , VAL A:189 , HOH A:1316 , HOH A:1332 , HOH A:1333 , HOH A:1351 , HOH A:1369 , ARG C:148 , ADP C:1304 , HOH C:1311 , HOH C:1364
BINDING SITE FOR RESIDUE ADP A 1301
11
BC5
SOFTWARE
LEU B:33 , ALA B:35 , SER B:36 , GLY B:37 , LYS B:38 , SER B:39 , THR B:40 , ARG B:148 , PRO B:150 , LEU B:187 , HOH B:1317 , HOH B:1330 , HOH B:1341 , HOH B:1343 , HOH B:1350 , HOH B:1352 , HOH B:1382 , HOH B:1390 , HOH B:1392 , HOH B:1395 , GLU D:186
BINDING SITE FOR RESIDUE ADP B 1302
12
BC6
SOFTWARE
SER B:34 , ARG B:66 , PHE B:75 , ARG B:80 , ASN B:83 , ILE B:84 , PHE B:105 , ILE B:106 , SER B:107 , PRO B:108 , LEU B:153 , LYS B:163 , GLU B:164 , THR B:166 , HOH B:1341 , HOH B:1387 , HOH B:1434
BINDING SITE FOR RESIDUE ADX B 1303
13
BC7
SOFTWARE
ARG A:148 , ADP A:1301 , LEU C:33 , ALA C:35 , SER C:36 , GLY C:37 , LYS C:38 , SER C:39 , THR C:40 , ARG C:148 , ASN C:184 , LEU C:187 , HOH C:1311 , HOH C:1330 , HOH C:1338 , HOH C:1340 , HOH C:1343 , HOH C:1350 , HOH C:1364 , HOH C:1413
BINDING SITE FOR RESIDUE ADP C 1304
14
BC8
SOFTWARE
GLU B:186 , LEU D:33 , ALA D:35 , SER D:36 , GLY D:37 , LYS D:38 , SER D:39 , THR D:40 , ARG D:148 , PRO D:150 , ASN D:184 , LEU D:187 , HOH D:1327 , HOH D:1335 , HOH D:1336 , HOH D:1337 , HOH D:1351 , HOH D:1353 , HOH D:1359 , HOH D:1381 , HOH D:1402
BINDING SITE FOR RESIDUE ADP D 1305
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
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Exons
(0, 0)
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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
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1m7ha_ (A:)
1b: SCOP_d1m7hb_ (B:)
1c: SCOP_d1m7hc_ (C:)
1d: SCOP_d1m7hd_ (D:)
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Protein Domains
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)
Organisms
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)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
Adenosine-5'phosphosulfate kinase (APS kinase)
(9)
Protein domain
:
Adenosine-5'phosphosulfate kinase (APS kinase)
(6)
Fungus (Penicillium chrysogenum) [TaxId: 5076]
(3)
1a
d1m7ha_
A:
1b
d1m7hb_
B:
1c
d1m7hc_
C:
1d
d1m7hd_
D:
[
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CATH Domains
(1, 4)
Info
all CATH domains
1a: CATH_1m7hC00 (C:6-209)
1b: CATH_1m7hA00 (A:7-209)
1c: CATH_1m7hB00 (B:6-211)
1d: CATH_1m7hD00 (D:6-209)
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)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
P-loop containing nucleotide triphosphate hydrolases
(1378)
Penicillium chrysogenum. Organism_taxid: 5076.
(4)
1a
1m7hC00
C:6-209
1b
1m7hA00
A:7-209
1c
1m7hB00
B:6-211
1d
1m7hD00
D:6-209
[
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_APS_kinase_1m7hD01 (D:24-189)
1b: PFAM_APS_kinase_1m7hD02 (D:24-189)
1c: PFAM_APS_kinase_1m7hD03 (D:24-189)
1d: PFAM_APS_kinase_1m7hD04 (D:24-189)
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Clan
:
P-loop_NTPase
(1112)
Family
:
APS_kinase
(10)
Penicillium chrysogenum (Penicillium notatum)
(2)
1a
APS_kinase-1m7hD01
D:24-189
1b
APS_kinase-1m7hD02
D:24-189
1c
APS_kinase-1m7hD03
D:24-189
1d
APS_kinase-1m7hD04
D:24-189
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Asym.Unit (151 KB)
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Biol.Unit 3 (144 KB)
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