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1J2T
Asym. Unit
Info
Asym.Unit (274 KB)
Biol.Unit 1 (266 KB)
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(1)
Title
:
CREATININASE MN
Authors
:
T. Yoshimoto, N. Tanaka, N. Kanada, T. Inoue, Y. Nakajima, M. Haratake, K. T. Nakamura, Y. Xu, K. Ito
Date
:
11 Jan 03 (Deposition) - 27 Jan 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D,E,F (1x)
Keywords
:
Creatinine, Creatine, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Yoshimoto, N. Tanaka, N. Kanada, T. Inoue, Y. Nakajima, M. Haratake, K. T. Nakamura, Y. Xu, K. Ito
Crystal Structures Of Creatininase Reveal The Substrate Binding Site And Provide An Insight Into The Catalytic Mechanism
J. Mol. Biol. V. 337 399 2004
(for further references see the
PDB file header
)
[
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Hetero Components
(3, 22)
Info
All Hetero Components
1a: MANGANESE (II) ION (MNa)
1b: MANGANESE (II) ION (MNb)
1c: MANGANESE (II) ION (MNc)
1d: MANGANESE (II) ION (MNd)
1e: MANGANESE (II) ION (MNe)
1f: MANGANESE (II) ION (MNf)
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)
3a: ZINC ION (ZNa)
3b: ZINC ION (ZNb)
3c: ZINC ION (ZNc)
3d: ZINC ION (ZNd)
3e: ZINC ION (ZNe)
3f: ZINC ION (ZNf)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MN
6
Ligand/Ion
MANGANESE (II) ION
2
SO4
10
Ligand/Ion
SULFATE ION
3
ZN
6
Ligand/Ion
ZINC ION
[
close Hetero Component info
]
Sites
(22, 22)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:36 , ASP A:45 , GLU A:183 , MN A:301 , HOH A:7008
BINDING SITE FOR RESIDUE ZN A 302
02
AC2
SOFTWARE
GLU A:34 , ASP A:45 , HIS A:120 , ZN A:302 , HOH A:7008 , HOH A:7009
BINDING SITE FOR RESIDUE MN A 301
03
AC3
SOFTWARE
HIS B:36 , ASP B:45 , GLU B:183 , MN B:301 , HOH B:7009
BINDING SITE FOR RESIDUE ZN B 302
04
AC4
SOFTWARE
GLU B:34 , ASP B:45 , HIS B:120 , ZN B:302 , HOH B:7009 , HOH B:7010
BINDING SITE FOR RESIDUE MN B 301
05
AC5
SOFTWARE
HIS C:36 , ASP C:45 , GLU C:183 , MN C:301 , HOH C:7010
BINDING SITE FOR RESIDUE ZN C 302
06
AC6
SOFTWARE
GLU C:34 , ASP C:45 , HIS C:120 , ZN C:302 , HOH C:7010 , HOH C:7011
BINDING SITE FOR RESIDUE MN C 301
07
AC7
SOFTWARE
HIS D:36 , ASP D:45 , GLU D:183 , MN D:301 , HOH D:7002
BINDING SITE FOR RESIDUE ZN D 302
08
AC8
SOFTWARE
GLU D:34 , ASP D:45 , HIS D:120 , ZN D:302 , HOH D:7002 , HOH D:7003
BINDING SITE FOR RESIDUE MN D 301
09
AC9
SOFTWARE
HIS E:36 , ASP E:45 , GLU E:183 , MN E:301 , HOH E:7004
BINDING SITE FOR RESIDUE ZN E 302
10
BC1
SOFTWARE
GLU E:34 , ASP E:45 , HIS E:120 , ZN E:302 , HOH E:7004 , HOH E:7005
BINDING SITE FOR RESIDUE MN E 301
11
BC2
SOFTWARE
HIS F:36 , ASP F:45 , GLU F:183 , MN F:301 , HOH F:7011
BINDING SITE FOR RESIDUE ZN F 302
12
BC3
SOFTWARE
GLU F:34 , ASP F:45 , HIS F:120 , ZN F:302 , HOH F:7011 , HOH F:7012
BINDING SITE FOR RESIDUE MN F 301
13
BC4
SOFTWARE
LYS D:54 , ARG D:55 , TYR D:191 , HOH D:7063 , HOH D:7144 , HOH D:7153
BINDING SITE FOR RESIDUE SO4 D 7001
14
BC5
SOFTWARE
LYS B:54 , ARG B:55 , TYR B:191 , HOH B:7088 , HOH B:7150 , HOH B:7210
BINDING SITE FOR RESIDUE SO4 B 7002
15
BC6
SOFTWARE
LYS E:54 , ARG E:55 , TYR E:191 , HOH E:7065 , HOH E:7151 , HOH E:7194
BINDING SITE FOR RESIDUE SO4 E 7003
16
BC7
SOFTWARE
LYS F:54 , ARG F:55 , TYR F:191 , HOH F:7040 , HOH F:7143 , HOH F:7157
BINDING SITE FOR RESIDUE SO4 F 7004
17
BC8
SOFTWARE
LYS C:54 , ARG C:55 , TYR C:191 , HOH C:7060 , HOH C:7124 , HOH C:7180
BINDING SITE FOR RESIDUE SO4 C 7005
18
BC9
SOFTWARE
LYS A:54 , ARG A:55 , TYR A:191 , HOH A:7057 , HOH A:7131 , HOH A:7262
BINDING SITE FOR RESIDUE SO4 A 7006
19
CC1
SOFTWARE
ARG A:113 , LYS A:147 , GLU A:256 , PHE A:257 , HOH A:7118 , HOH A:7245
BINDING SITE FOR RESIDUE SO4 A 7007
20
CC2
SOFTWARE
ARG B:113 , LYS B:147 , GLU B:256 , PHE B:257 , HOH B:7075 , HOH B:7144 , HOH B:7169
BINDING SITE FOR RESIDUE SO4 B 7008
21
CC3
SOFTWARE
ARG C:113 , LYS C:147 , GLU C:256 , PHE C:257 , HOH C:7075 , HOH C:7220
BINDING SITE FOR RESIDUE SO4 C 7009
22
CC4
SOFTWARE
ARG F:113 , LYS F:147 , GLU F:256 , PHE F:257 , HOH F:7083
BINDING SITE FOR RESIDUE SO4 F 7010
[
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]
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
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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End label:
Sorry, no Info available
[
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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.
SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d1j2ta_ (A:)
1b: SCOP_d1j2te_ (E:)
1c: SCOP_d1j2tf_ (F:)
1d: SCOP_d1j2tb_ (B:)
1e: SCOP_d1j2tc_ (C:)
1f: SCOP_d1j2td_ (D:)
View:
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Classes
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(
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(
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(
)
(
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Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Creatininase
(13)
Superfamily
:
Creatininase
(13)
Family
:
Creatininase
(13)
Protein domain
:
Creatininase
(12)
Pseudomonas putida [TaxId: 303]
(12)
1a
d1j2ta_
A:
1b
d1j2te_
E:
1c
d1j2tf_
F:
1d
d1j2tb_
B:
1e
d1j2tc_
C:
1f
d1j2td_
D:
[
close SCOP info
]
CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1j2tA00 (A:3-259)
1b: CATH_1j2tB00 (B:3-259)
1c: CATH_1j2tC00 (C:3-259)
1d: CATH_1j2tD00 (D:3-259)
1e: CATH_1j2tE00 (E:3-259)
1f: CATH_1j2tF00 (F:3-259)
View:
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(
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Architectures
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(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
Creatininase
(12)
Pseudomonas putida. Organism_taxid: 303.
(11)
1a
1j2tA00
A:3-259
1b
1j2tB00
B:3-259
1c
1j2tC00
C:3-259
1d
1j2tD00
D:3-259
1e
1j2tE00
E:3-259
1f
1j2tF00
F:3-259
[
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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 & NOT Site
Protein & NOT PROSITE
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Chain C
Chain D
Chain E
Chain F
Asymmetric Unit 1
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
set fontsize 20
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show SS bonds with a radius of 100 units (=0.4Å)
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