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2IUF
Biol. Unit 1
Info
Asym.Unit (264 KB)
Biol.Unit 1 (499 KB)
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(1)
Title
:
THE STRUCTURES OF PENICILLIUM VITALE CATALASE: RESTING STATE, OXIDISED STATE (COMPOUND I) AND COMPLEX WITH AMINOTRIAZOLE
Authors
:
G. Murshudov, A. Borovik, A. Grebenko, V. Barynin, A. Vagin, W. Melik-
Date
:
02 Jun 06 (Deposition) - 10 Jul 06 (Release) - 28 Dec 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.71
Chains
:
Asym. Unit : A,E
Biol. Unit 1: A,E (2x)
Keywords
:
Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Alfonso-Prieto, A. Borovik, X. Carpena, G. Murshudov, W. Melik-Adamyan, I. Fita, C. Rovira, P. C. Loewen
The Structures And Electronic Configuration Of Compound I Intermediates Of Helicobacter Pylori And Penicillium Vitale Catalases Determined By X-Ray Crystallography And Qm/Mm Density Functional Theory Calculations.
J. Am. Chem. Soc. V. 129 4193 2007
[
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Hetero Components
(6, 72)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
1e: ACETATE ION (ACTe)
1f: ACETATE ION (ACTf)
1g: ACETATE ION (ACTg)
1h: ACETATE ION (ACTh)
1i: ACETATE ION (ACTi)
1j: ACETATE ION (ACTj)
1k: ACETATE ION (ACTk)
1l: ACETATE ION (ACTl)
1m: ACETATE ION (ACTm)
2a: CALCIUM ION (CAa)
2b: CALCIUM ION (CAb)
2c: CALCIUM ION (CAc)
2d: CALCIUM ION (CAd)
2e: CALCIUM ION (CAe)
2f: CALCIUM ION (CAf)
3a: ETHANEPEROXOIC ACID (F50a)
3b: ETHANEPEROXOIC ACID (F50b)
3c: ETHANEPEROXOIC ACID (F50c)
4a: CIS-HEME D HYDROXYCHLORIN GAMMA-SP... (HDDa)
4b: CIS-HEME D HYDROXYCHLORIN GAMMA-SP... (HDDb)
5a: S-OXYMETHIONINE (MHOa)
5b: S-OXYMETHIONINE (MHOb)
5c: S-OXYMETHIONINE (MHOc)
5d: S-OXYMETHIONINE (MHOd)
5e: S-OXYMETHIONINE (MHOe)
5f: S-OXYMETHIONINE (MHOf)
5g: S-OXYMETHIONINE (MHOg)
5h: S-OXYMETHIONINE (MHOh)
5i: S-OXYMETHIONINE (MHOi)
5j: S-OXYMETHIONINE (MHOj)
6a: (4S)-2-METHYL-2,4-PENTANEDIOL (MPDa)
7a: N-ACETYL-D-GLUCOSAMINE (NAGa)
7b: N-ACETYL-D-GLUCOSAMINE (NAGb)
7c: N-ACETYL-D-GLUCOSAMINE (NAGc)
7d: N-ACETYL-D-GLUCOSAMINE (NAGd)
7e: N-ACETYL-D-GLUCOSAMINE (NAGe)
7f: N-ACETYL-D-GLUCOSAMINE (NAGf)
7g: N-ACETYL-D-GLUCOSAMINE (NAGg)
8a: OXYGEN ATOM (Oa)
8b: OXYGEN ATOM (Ob)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
26
Ligand/Ion
ACETATE ION
2
CA
-1
Ligand/Ion
CALCIUM ION
3
F50
6
Ligand/Ion
ETHANEPEROXOIC ACID
4
HDD
4
Ligand/Ion
CIS-HEME D HYDROXYCHLORIN GAMMA-SPIROLACTONE
5
MHO
20
Mod. Amino Acid
S-OXYMETHIONINE
6
MPD
2
Ligand/Ion
(4S)-2-METHYL-2,4-PENTANEDIOL
7
NAG
14
Ligand/Ion
N-ACETYL-D-GLUCOSAMINE
8
O
-1
Ligand/Ion
OXYGEN ATOM
[
close Hetero Component info
]
Sites
(32, 32)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ARG A:61 , VAL A:63 , HIS A:64 , ARG A:101 , GLY A:120 , VAL A:135 , GLY A:136 , ASN A:137 , PHE A:142 , PHE A:150 , VAL A:210 , HIS A:211 , PHE A:327 , LEU A:343 , ARG A:347 , SER A:350 , TYR A:351 , THR A:354 , GLN A:355 , ARG A:358 , O A:1695 , HOH A:2163 , HOH A:2764
BINDING SITE FOR RESIDUE HDD A1691
02
AC2
SOFTWARE
VAL A:63 , HIS A:64 , PHE A:150 , HDD A:1691
BINDING SITE FOR RESIDUE O A1695
03
AC3
SOFTWARE
GLU A:95 , SER A:653 , ARG A:655 , VAL A:658 , HOH A:2718 , HOH A:2721
BINDING SITE FOR RESIDUE CA A1696
04
AC4
SOFTWARE
THR A:432 , HOH A:2209 , HOH A:2210 , HOH A:2507 , HOH A:2510 , HOH E:2041 , HOH E:2044
BINDING SITE FOR RESIDUE CA A1697
05
AC5
SOFTWARE
VAL A:105 , ALA A:106 , ASP A:117 , VAL A:118 , PHE A:143 , ILE A:154
BINDING SITE FOR RESIDUE ACT A1698
06
AC6
SOFTWARE
ARG A:116 , ASP A:117 , THR A:170 , LEU A:189 , ALA A:192
BINDING SITE FOR RESIDUE F50 A1699
07
AC7
SOFTWARE
GLU A:241 , PHE A:458 , ASP A:461 , HOH A:2770 , HOH A:2771
BINDING SITE FOR RESIDUE ACT A1700
08
AC8
SOFTWARE
PHE A:132 , ASP A:133 , PHE A:213 , PRO A:329 , HIS A:331 , HOH A:2772
BINDING SITE FOR RESIDUE ACT A1701
09
AC9
SOFTWARE
LYS A:235 , PHE A:521 , GLY A:522 , GLU A:523 , THR A:678 , PHE A:679 , LYS A:680 , HOH A:2589 , HOH A:2773
BINDING SITE FOR RESIDUE ACT A1702
10
BC1
SOFTWARE
ASN A:11 , ASP A:12 , GLN A:13 , HOH A:2774 , LEU E:391 , ASP E:392 , ASN E:402
BINDING SITE FOR RESIDUE ACT A1703
11
BC2
SOFTWARE
ILE A:276 , GLN A:278 , HOH A:2053 , HOH A:2147 , HOH A:2355 , HOH E:2136
BINDING SITE FOR RESIDUE MPD A1704
12
BC3
SOFTWARE
ARG E:61 , VAL E:63 , HIS E:64 , ARG E:101 , GLY E:120 , VAL E:135 , GLY E:136 , ASN E:137 , PHE E:142 , PHE E:150 , VAL E:210 , HIS E:211 , PHE E:327 , LEU E:343 , ARG E:347 , SER E:350 , TYR E:351 , THR E:354 , GLN E:355 , ARG E:358 , O E:1696 , HOH E:2143 , HOH E:2705
BINDING SITE FOR RESIDUE HDD E1691
13
BC4
SOFTWARE
VAL E:63 , HIS E:64 , PHE E:150 , HDD E:1691
BINDING SITE FOR RESIDUE O E1696
14
BC5
SOFTWARE
SER E:653 , ARG E:655 , VAL E:658 , HOH E:2667 , HOH E:2670 , HOH E:2675
BINDING SITE FOR RESIDUE CA E1697
15
BC6
SOFTWARE
HOH A:2051 , HOH A:2059 , THR E:432 , HOH E:2187 , HOH E:2189 , HOH E:2474 , HOH E:2476
BINDING SITE FOR RESIDUE CA E1698
16
BC7
SOFTWARE
VAL E:105 , ASP E:117 , VAL E:118 , PHE E:143
BINDING SITE FOR RESIDUE ACT E1699
17
BC8
SOFTWARE
ARG E:116 , ASP E:117 , THR E:170 , LEU E:189 , ALA E:192
BINDING SITE FOR RESIDUE F50 E1700
18
BC9
SOFTWARE
HOH A:2697 , GLU E:241 , PHE E:458 , ASP E:461 , HOH E:2289
BINDING SITE FOR RESIDUE ACT E1701
19
CC1
SOFTWARE
PHE E:132 , ASP E:133 , PHE E:213 , PRO E:329 , HIS E:331 , HOH E:2708
BINDING SITE FOR RESIDUE ACT E1702
20
CC2
SOFTWARE
LYS E:235 , PHE E:521 , GLY E:522 , GLU E:523 , THR E:678 , PHE E:679 , LYS E:680 , HOH E:2709 , HOH E:2710
BINDING SITE FOR RESIDUE ACT E1703
21
CC3
SOFTWARE
LEU A:391 , ASP A:392 , ASN A:402 , ASN E:11 , ASP E:12 , GLN E:13 , HOH E:2711
BINDING SITE FOR RESIDUE ACT E1704
22
CC4
SOFTWARE
ILE E:276 , GLN E:278
BINDING SITE FOR RESIDUE F50 E1705
23
CC5
SOFTWARE
ARG E:445 , TRP E:448 , SER E:487 , ASP E:488 , ASN E:489 , HOH E:2492 , HOH E:2714
BINDING SITE FOR RESIDUE ACT E1706
24
CC6
SOFTWARE
ARG E:313 , ARG E:373 , HOH E:2001 , HOH E:2097 , HOH E:2715 , HOH E:2716
BINDING SITE FOR RESIDUE ACT E1707
25
CC7
SOFTWARE
HOH A:2319 , HOH A:2702 , HOH E:2294 , HOH E:2297 , HOH E:2650 , HOH E:2652
BINDING SITE FOR RESIDUE CA E1710
26
CC8
SOFTWARE
HOH A:2430 , HOH E:2160 , HOH E:2393 , HOH E:2395
BINDING SITE FOR RESIDUE CA E1711
27
CC9
SOFTWARE
ASP A:79 , SER A:81 , ASN A:82
BINDING SITE FOR MONO-SACCHARIDE NAG A1694 BOUND TO ASN A 82
28
DC1
SOFTWARE
ASN A:410 , THR A:412 , VAL A:413 , HOH A:2481 , HOH A:2487 , HOH A:2765 , HOH A:2766 , HOH E:2031
BINDING SITE FOR MONO-SACCHARIDE NAG A1692 BOUND TO ASN A 410
29
DC2
SOFTWARE
HIS A:511 , ASP A:512 , ASN A:513 , HOH A:2014 , HOH A:2768 , HOH A:2769 , SER E:87 , ASP E:128 , GLU E:129 , PRO E:375 , LYS E:415 , HOH E:2124 , HOH E:2456 , HOH E:2457
BINDING SITE FOR MONO-SACCHARIDE NAG A1693 BOUND TO ASN A 513
30
DC3
SOFTWARE
ASP E:79 , SER E:81 , ASN E:82
BINDING SITE FOR MONO-SACCHARIDE NAG E1694 BOUND TO ASN E 82
31
DC4
SOFTWARE
ASN E:410 , THR E:412 , HOH E:2061 , HOH E:2602 , HOH E:2706
BINDING SITE FOR POLY-SACCHARIDE RESIDUES NAG E1692 THROUGH NAG E1695 BOUND TO ASN E 410
32
DC5
SOFTWARE
ASN E:513 , HOH E:2488
BINDING SITE FOR MONO-SACCHARIDE NAG E1693 BOUND TO ASN E 513
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(, 0)
Info
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Exons
(0, 0)
Info
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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
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CATH Domains
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Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
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Info
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Sorry, no Info available
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)
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