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4CEU
Asym. Unit
Info
Asym.Unit (150 KB)
Biol.Unit 1 (418 KB)
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(1)
Title
:
1.58 A RESOLUTION NATIVE SPOROSARCINA PASTEURII UREASE
Authors
:
S. Benini, M. Cianci, S. Ciurli
Date
:
12 Nov 13 (Deposition) - 27 Aug 14 (Release) - 17 Dec 14 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.58
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (3x)
Keywords
:
Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Benini, M. Cianci, L. Mazzei, S. Ciurli
Fluoride Inhibition Of Sporosarcina Pasteurii Urease: Structure And Thermodynamics.
J. Biol. Inorg. Chem. V. 19 1243 2014
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(6, 22)
Info
All Hetero Components
1a: N-CARBOXYMETHIONINE (CXMa)
2a: 1,2-ETHANEDIOL (EDOa)
2b: 1,2-ETHANEDIOL (EDOb)
2c: 1,2-ETHANEDIOL (EDOc)
2d: 1,2-ETHANEDIOL (EDOd)
2e: 1,2-ETHANEDIOL (EDOe)
2f: 1,2-ETHANEDIOL (EDOf)
2g: 1,2-ETHANEDIOL (EDOg)
2h: 1,2-ETHANEDIOL (EDOh)
2i: 1,2-ETHANEDIOL (EDOi)
2j: 1,2-ETHANEDIOL (EDOj)
2k: 1,2-ETHANEDIOL (EDOk)
3a: LYSINE NZ-CARBOXYLIC ACID (KCXa)
4a: NICKEL (II) ION (NIa)
4b: NICKEL (II) ION (NIb)
5a: HYDROXIDE ION (OHa)
6a: SULFATE ION (SO4a)
6b: SULFATE ION (SO4b)
6c: SULFATE ION (SO4c)
6d: SULFATE ION (SO4d)
6e: SULFATE ION (SO4e)
6f: SULFATE ION (SO4f)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CXM
1
Mod. Amino Acid
N-CARBOXYMETHIONINE
2
EDO
11
Ligand/Ion
1,2-ETHANEDIOL
3
KCX
1
Mod. Amino Acid
LYSINE NZ-CARBOXYLIC ACID
4
NI
2
Ligand/Ion
NICKEL (II) ION
5
OH
1
Ligand/Ion
HYDROXIDE ION
6
SO4
6
Ligand/Ion
SULFATE ION
[
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]
Sites
(20, 20)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
KCX C:220 , HIS C:222 , HIS C:249 , HIS C:275 , GLY C:280 , NI C:601 , OH C:1571 , HOH C:2221
BINDING SITE FOR RESIDUE NI C 600
02
AC2
SOFTWARE
HIS C:137 , HIS C:139 , KCX C:220 , ASP C:363 , NI C:600 , OH C:1571 , HOH C:2196
BINDING SITE FOR RESIDUE NI C 601
03
AC3
SOFTWARE
HIS C:137 , KCX C:220 , HIS C:275 , ASP C:363 , NI C:600 , NI C:601 , HOH C:2196 , HOH C:2221 , HOH C:2312
BINDING SITE FOR RESIDUE OH C1571
04
AC4
SOFTWARE
ASP C:34 , THR C:36 , TYR C:38 , HOH C:2062 , HOH C:2072 , HOH C:2523
BINDING SITE FOR RESIDUE EDO C1572
05
AC5
SOFTWARE
GLY A:50 , LYS A:51 , THR A:52 , PHE A:86 , ASP A:88 , HOH A:2120 , VAL C:309 , ASN C:310 , LYS C:559
BINDING SITE FOR RESIDUE EDO A1101
06
AC6
SOFTWARE
ASP C:286 , ALA C:289 , ILE C:537 , ASP C:538 , ILE C:539 , HOH C:2294 , HOH C:2490
BINDING SITE FOR RESIDUE EDO C1573
07
AC7
SOFTWARE
HOH B:2112 , GLY C:46 , HIS C:323 , LEU C:325 , PHE C:335 , HOH C:2256 , HOH C:2526
BINDING SITE FOR RESIDUE EDO C1574
08
AC8
SOFTWARE
ASP B:101 , HOH B:2170 , HOH B:2203 , PRO C:229 , HOH C:2266 , HOH C:2302
BINDING SITE FOR RESIDUE EDO B1127
09
AC9
SOFTWARE
TYR C:93 , GLU C:423 , ARG C:513 , ILE C:514 , HOH C:2447 , HOH C:2527
BINDING SITE FOR RESIDUE EDO C1575
10
BC1
SOFTWARE
TYR C:35 , TYR C:83 , ILE C:97 , GLU C:429 , HOH C:2059 , HOH C:2528
BINDING SITE FOR RESIDUE EDO C1576
11
BC2
SOFTWARE
GLY A:27 , LYS A:29 , ASP A:67 , ASP A:68 , HOH A:2045 , HOH A:2058
BINDING SITE FOR RESIDUE EDO A1102
12
BC3
SOFTWARE
ARG C:62 , PRO C:177 , TRP C:178 , GLU C:181 , HOH C:2227
BINDING SITE FOR RESIDUE EDO C1577
13
BC4
SOFTWARE
ASN A:4 , ALA A:6 , LYS A:10 , HOH A:2111 , HOH A:2122 , PHE C:568 , PHE C:570 , HOH C:2367
BINDING SITE FOR RESIDUE EDO A1103
14
BC5
SOFTWARE
ASP C:536 , ASP C:538 , LYS C:547 , VAL C:548 , ASP C:549 , GLY C:550
BINDING SITE FOR RESIDUE EDO C1578
15
BC6
SOFTWARE
SER C:204 , ILE C:205 , HOH C:2115 , HOH C:2238 , HOH C:2239 , HOH C:2243
BINDING SITE FOR RESIDUE SO4 C1579
16
BC7
SOFTWARE
ARG B:116 , HOH B:2191
BINDING SITE FOR RESIDUE SO4 B1128
17
BC8
SOFTWARE
VAL C:558 , LYS C:559 , GLU C:560 , HOH C:2511 , HOH C:2530 , HOH C:2531
BINDING SITE FOR RESIDUE SO4 C1580
18
BC9
SOFTWARE
LYS C:511 , HOH C:2532
BINDING SITE FOR RESIDUE SO4 C1581
19
CC1
SOFTWARE
HIS C:222 , GLU C:223 , ASP C:224 , HIS C:249 , GLY C:280 , HIS C:323 , ARG C:339 , HOH C:2221 , HOH C:2258 , HOH C:2261 , HOH C:2312
BINDING SITE FOR RESIDUE SO4 C1582
20
CC2
SOFTWARE
MET A:70 , GLU A:71 , HOH A:2124 , ARG C:566
BINDING SITE FOR RESIDUE SO4 A1104
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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: UREASE_1 (C:130-143)
2: UREASE_3 (C:132-570)
3: UREASE_2 (C:320-336)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
UREASE_1
PS01120
Urease nickel ligands signature.
URE1_SPOPA
129-142
1
C:130-143
2
UREASE_3
PS51368
Urease domain profile.
URE1_SPOPA
131-569
1
C:132-570
3
UREASE_2
PS00145
Urease active site.
URE1_SPOPA
319-335
1
C:320-336
[
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]
Exons
(0, 0)
Info
All Exons
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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
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CATH Domains
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Pfam Domains
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Info
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Chain A
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Chain C
Asymmetric Unit 1
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select chains 'A' and 'C'
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select all 'ALA' residues (Alanines) in chain 'A'
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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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