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5CEV
Asym. Unit
Info
Asym.Unit (290 KB)
Biol.Unit 1 (285 KB)
Biol.Unit 2 (282 KB)
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(1)
Title
:
ARGINASE FROM BACILLUS CALDEVELOX, L-LYSINE COMPLEX
Authors
:
M. C. Bewley, P. D. Jeffrey, M. L. Patchett, Z. F. Kanyo, E. N. Baker
Date
:
16 Mar 99 (Deposition) - 16 Apr 99 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.50
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C (2x)
Biol. Unit 2: D,E,F (2x)
Keywords
:
Enzyme, Hydrolase, Arginine Hydrolysis, Nitrogen Metabolism, Manganese Metalloenzyme
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. C. Bewley, P. D. Jeffrey, M. L. Patchett, Z. F. Kanyo, E. N. Baker
Crystal Structures Of Bacillus Caldovelox Arginase In Complex With Substrate And Inhibitors Reveal New Insights Into Activation, Inhibition And Catalysis In The Arginase Superfamily.
Structure Fold. Des. V. 7 435 1999
(for further references see the
PDB file header
)
[
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Hetero Components
(3, 24)
Info
All Hetero Components
1a: GUANIDINE (GAIa)
1b: GUANIDINE (GAIb)
1c: GUANIDINE (GAIc)
1d: GUANIDINE (GAId)
1e: GUANIDINE (GAIe)
1f: GUANIDINE (GAIf)
2a: LYSINE (LYSa)
2b: LYSINE (LYSb)
2c: LYSINE (LYSc)
2d: LYSINE (LYSd)
2e: LYSINE (LYSe)
2f: LYSINE (LYSf)
3a: MANGANESE (II) ION (MNa)
3b: MANGANESE (II) ION (MNb)
3c: MANGANESE (II) ION (MNc)
3d: MANGANESE (II) ION (MNd)
3e: MANGANESE (II) ION (MNe)
3f: MANGANESE (II) ION (MNf)
3g: MANGANESE (II) ION (MNg)
3h: MANGANESE (II) ION (MNh)
3i: MANGANESE (II) ION (MNi)
3j: MANGANESE (II) ION (MNj)
3k: MANGANESE (II) ION (MNk)
3l: MANGANESE (II) ION (MNl)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GAI
6
Ligand/Ion
GUANIDINE
2
LYS
6
Mod. Amino Acid
LYSINE
3
MN
12
Ligand/Ion
MANGANESE (II) ION
[
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]
Sites
(30, 30)
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: MNA (AUTHOR)
26: MNB (AUTHOR)
27: MNC (AUTHOR)
28: MND (AUTHOR)
29: MNE (AUTHOR)
30: MNF (AUTHOR)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:99 , ASP A:122 , ASP A:126 , ASP A:226 , MN A:301 , HOH A:407
BINDING SITE FOR RESIDUE MN A 300
02
AC2
SOFTWARE
ASP A:122 , HIS A:124 , ASP A:226 , ASP A:228 , MN A:300 , HOH A:407
BINDING SITE FOR RESIDUE MN A 301
03
AC3
SOFTWARE
HOH A:408 , HIS B:99 , ASP B:122 , ASP B:126 , ASP B:226 , MN B:301
BINDING SITE FOR RESIDUE MN B 300
04
AC4
SOFTWARE
HOH A:408 , ASP B:122 , HIS B:124 , ASP B:226 , ASP B:228 , MN B:300
BINDING SITE FOR RESIDUE MN B 301
05
AC5
SOFTWARE
HOH A:409 , HIS C:99 , ASP C:122 , ASP C:126 , ASP C:226 , MN C:301
BINDING SITE FOR RESIDUE MN C 300
06
AC6
SOFTWARE
HOH A:409 , ASP C:122 , HIS C:124 , ASP C:226 , ASP C:228 , MN C:300
BINDING SITE FOR RESIDUE MN C 301
07
AC7
SOFTWARE
HOH A:410 , HIS D:99 , ASP D:122 , ASP D:126 , ASP D:226 , MN D:301
BINDING SITE FOR RESIDUE MN D 300
08
AC8
SOFTWARE
HOH A:410 , ASP D:122 , HIS D:124 , ASP D:226 , ASP D:228 , MN D:300
BINDING SITE FOR RESIDUE MN D 301
09
AC9
SOFTWARE
HOH A:411 , HIS E:99 , ASP E:122 , ASP E:126 , ASP E:226 , MN E:301
BINDING SITE FOR RESIDUE MN E 300
10
BC1
SOFTWARE
HOH A:411 , ASP E:122 , HIS E:124 , ASP E:226 , ASP E:228 , MN E:300
BINDING SITE FOR RESIDUE MN E 301
11
BC2
SOFTWARE
HIS F:99 , ASP F:122 , ASP F:126 , ASP F:226 , MN F:301 , HOH F:302
BINDING SITE FOR RESIDUE MN F 300
12
BC3
SOFTWARE
ASP F:122 , HIS F:124 , ASP F:226 , ASP F:228 , MN F:300 , HOH F:302
BINDING SITE FOR RESIDUE MN F 301
13
BC4
SOFTWARE
ASP A:126 , ASN A:128 , SER A:135 , HIS A:139 , ASP A:178 , THR A:240 , GLU A:271 , HOH A:407 , HOH A:413 , HOH A:415 , HOH A:435 , HOH A:437 , HOH A:480
BINDING SITE FOR RESIDUE LYS A 401
14
BC5
SOFTWARE
HOH A:408 , HOH A:427 , HOH A:454 , ASP B:126 , ASN B:128 , SER B:135 , HIS B:139 , ASP B:178 , THR B:240 , GLU B:271 , HOH B:416 , HOH B:428
BINDING SITE FOR RESIDUE LYS A 402
15
BC6
SOFTWARE
HOH A:409 , HOH A:428 , HOH A:455 , HOH A:456 , ASP C:126 , ASN C:128 , SER C:135 , HIS C:139 , ASP C:178 , GLU C:181 , THR C:240 , GLU C:271 , HOH C:418 , HOH C:468
BINDING SITE FOR RESIDUE LYS A 403
16
BC7
SOFTWARE
HOH A:410 , HOH A:434 , HOH A:457 , HOH A:458 , ASP D:126 , ASN D:128 , SER D:135 , HIS D:139 , ASP D:178 , GLU D:181 , THR D:240 , GLU D:271 , HOH D:414 , HOH D:469
BINDING SITE FOR RESIDUE LYS A 404
17
BC8
SOFTWARE
HOH A:411 , ASP E:126 , ASN E:128 , SER E:135 , HIS E:139 , ASP E:178 , GLU E:181 , THR E:240 , GLU E:271 , HOH E:418 , HOH E:420 , HOH E:436 , HOH E:438
BINDING SITE FOR RESIDUE LYS A 405
18
BC9
SOFTWARE
ASP F:126 , ASN F:128 , SER F:135 , HIS F:139 , GLY F:140 , ASP F:178 , GLU F:181 , THR F:240 , GLU F:271 , HOH F:302 , HOH F:307 , HOH F:320 , HOH F:322 , HOH F:357
BINDING SITE FOR RESIDUE LYS A 406
19
CC1
SOFTWARE
HIS A:252 , GLU A:256 , MET B:195 , HIS B:196 , ASP B:199 , HOH B:409
BINDING SITE FOR RESIDUE GAI B 407
20
CC2
SOFTWARE
HIS B:252 , GLU B:256 , MET C:195 , HIS C:196 , ASP C:199 , HOH C:410
BINDING SITE FOR RESIDUE GAI B 408
21
CC3
SOFTWARE
HIS A:196 , ASP A:199 , HOH A:429 , HIS C:252 , GLU C:256 , LEU C:298
BINDING SITE FOR RESIDUE GAI C 409
22
CC4
SOFTWARE
HIS D:252 , LEU D:253 , GLU D:256 , ASP E:199 , HOH E:412
BINDING SITE FOR RESIDUE GAI E 410
23
CC5
SOFTWARE
HIS E:252 , GLU E:256 , MET F:195 , HIS F:196 , ASP F:199
BINDING SITE FOR RESIDUE GAI E 411
24
CC6
SOFTWARE
ASP D:199 , HOH D:427 , ARG F:249 , HIS F:252 , LEU F:253 , GLU F:256
BINDING SITE FOR RESIDUE GAI D 412
25
MNA
AUTHOR
MN A:300 , MN A:301 , HIS A:99 , ASP A:122 , HIS A:124 , ASP A:126 , ASP A:226 , ASP A:228
SITE COMPRISES TWO MN ATOMS, RESIDUE A 300 AND A 301 MN A 300 BOUND TO HIS 99 ND1, ASP 122 OD2, ASP 126 OD2, ASP 226 OD2, AND A BRIDGING WATER HOH 1. MN A 301 BOUND TO HIS 124 ND1, ASP 122 OD1, ASP 226 OD2, ASP 228 OD1, ASP 228 OD2 AND THE BRIDGING WATER HOH 1
26
MNB
AUTHOR
MN B:300 , MN B:301 , HIS B:99 , ASP B:122 , HIS B:124 , ASP B:126 , ASP B:226 , ASP B:228
SITE COMPRISES TWO MN ATOMS, RESIDUE B 300 AND B 301 MN B 300 BOUND TO HIS 99 ND1, ASP 122 OD2, ASP 126 OD2, ASP 226 OD2, AND A BRIDGING WATER HOH 2. MN B 301 BOUND TO HIS 124 ND1, ASP 122 OD1, ASP 226 OD2, ASP 228 OD1, ASP 228 OD2 AND THE BRIDGING WATER HOH 2
27
MNC
AUTHOR
MN C:300 , MN C:301 , HIS C:99 , ASP C:122 , HIS C:124 , ASP C:126 , ASP C:226 , ASP C:228
SITE COMPRISES TWO MN ATOMS, RESIDUE C 300 AND C 301 MN C 300 BOUND TO HIS 99 ND1, ASP 122 OD2, ASP 126 OD2, ASP 226 OD2, AND A BRIDGING WATER HOH 3. MN C 301 BOUND TO HIS 124 ND1, ASP 122 OD1, ASP 226 OD2, ASP 228 OD1, ASP 228 OD2 AND THE BRIDGING WATER HOH 3
28
MND
AUTHOR
MN D:300 , MN D:301 , HIS D:99 , ASP D:122 , HIS D:124 , ASP D:126 , ASP D:226 , ASP D:228
SITE COMPRISES TWO MN ATOMS, RESIDUE D 300 AND D 301 MN D 300 BOUND TO HIS 99 ND1, ASP 122 OD2, ASP 126 OD2, ASP 226 OD2, AND A BRIDGING WATER HOH 4. MN D 301 BOUND TO HIS 124 ND1, ASP 122 OD1, ASP 226 OD2, ASP 228 OD1, ASP 228 OD2 AND THE BRIDGING WATER HOH 4
29
MNE
AUTHOR
MN E:300 , MN E:301 , HIS E:99 , ASP E:122 , HIS E:124 , ASP E:126 , ASP E:226 , ASP E:228
SITE COMPRISES TWO MN ATOMS, RESIDUE E 300 AND E 301 MN E 300 BOUND TO HIS 99 ND1, ASP 122 OD2, ASP 126 OD2, ASP 226 OD2, AND A BRIDGING WATER HOH 5. MN E 301 BOUND TO HIS 124 ND1, ASP 122 OD1, ASP 226 OD2, ASP 228 OD1, ASP 228 OD2 AND THE BRIDGING WATER HOH 5
30
MNF
AUTHOR
MN F:300 , MN F:301 , HIS F:99 , ASP F:122 , HIS F:124 , ASP F:126 , ASP F:226 , ASP F:228
SITE COMPRISES TWO MN ATOMS, RESIDUE F 300 AND F 301 MN F 300 BOUND TO HIS 99 ND1, ASP 122 OD2, ASP 126 OD2, ASP 226 OD2, AND A BRIDGING WATER HOH 6. MN F 301 BOUND TO HIS 124 ND1, ASP 122 OD1, ASP 226 OD2, ASP 228 OD1, ASP 228 OD2 AND THE BRIDGING WATER HOH 6
[
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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
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
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Label:
End label:
Sorry, no Info available
[
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]
Exons
(0, 0)
Info
All Exons
View:
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Label:
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
(1, 6)
Info
All SCOP Domains
1a: SCOP_d5ceva_ (A:)
1b: SCOP_d5cevb_ (B:)
1c: SCOP_d5cevc_ (C:)
1d: SCOP_d5cevd_ (D:)
1e: SCOP_d5ceve_ (E:)
1f: SCOP_d5cevf_ (F:)
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Classes
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(
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(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Arginase/deacetylase
(138)
Superfamily
:
Arginase/deacetylase
(138)
Family
:
Arginase-like amidino hydrolases
(97)
Protein domain
:
Arginase
(73)
Bacillus caldovelox [TaxId: 33931]
(5)
1a
d5ceva_
A:
1b
d5cevb_
B:
1c
d5cevc_
C:
1d
d5cevd_
D:
1e
d5ceve_
E:
1f
d5cevf_
F:
[
close SCOP info
]
CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_5cevA00 (A:2-299)
1b: CATH_5cevB00 (B:2-299)
1c: CATH_5cevC00 (C:2-299)
1d: CATH_5cevD00 (D:2-299)
1e: CATH_5cevE00 (E:2-299)
1f: CATH_5cevF00 (F:2-299)
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(
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(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Arginase; Chain A
(84)
Homologous Superfamily
:
[code=3.40.800.10, no name defined]
(63)
Bacillus caldovelox. Organism_taxid: 33931. Strain: bacillus species dsm 411.
(5)
1a
5cevA00
A:2-299
1b
5cevB00
B:2-299
1c
5cevC00
C:2-299
1d
5cevD00
D:2-299
1e
5cevE00
E:2-299
1f
5cevF00
F:2-299
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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