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3I8R
Asym. Unit
Info
Asym.Unit (193 KB)
Biol.Unit 1 (64 KB)
Biol.Unit 2 (64 KB)
Biol.Unit 3 (63 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE HEME OXYGENASE FROM CORYNEBACTERIUM DIPHTHERIAE (HMUO) IN COMPLEX WITH HEME BINDING DITIOTHREITOL (DTT)
Authors
:
T. Matsui, M. Unno, M. Ikeda-Saito
Date
:
10 Jul 09 (Deposition) - 19 May 10 (Release) - 19 May 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.50
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A (1x)
Biol. Unit 2: B (1x)
Biol. Unit 3: C (1x)
Keywords
:
Inhibitor, Heme Oxygenase, Dtt, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. Matsui, M. Iwasaki, R. Sugiyama, M. Unno, M. Ikeda-Saito
Dioxygen Activation For The Self-Degradation Of Heme: Reaction Mechanism And Regulation Of Heme Oxygenase.
Inorg. Chem. V. 49 3602 2010
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Hetero Components
(3, 15)
Info
All Hetero Components
1a: (2S,3S)-1,4-DIMERCAPTOBUTANE-2,3-D... (DTVa)
1b: (2S,3S)-1,4-DIMERCAPTOBUTANE-2,3-D... (DTVb)
1c: (2S,3S)-1,4-DIMERCAPTOBUTANE-2,3-D... (DTVc)
2a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
2b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
2c: PROTOPORPHYRIN IX CONTAINING FE (HEMc)
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)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DTV
3
Ligand/Ion
(2S,3S)-1,4-DIMERCAPTOBUTANE-2,3-DIOL
2
HEM
3
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
3
SO4
9
Ligand/Ion
SULFATE ION
[
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Sites
(15, 15)
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)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LYS A:13 , HIS A:20 , ALA A:23 , MET A:29 , TYR A:130 , VAL A:131 , GLY A:135 , VAL A:142 , ARG A:177 , PHE A:201 , ASN A:204 , PHE A:208 , HOH A:235 , HOH A:361 , HOH A:419 , DTV A:2001
BINDING SITE FOR RESIDUE HEM A 901
02
AC2
SOFTWARE
SER A:26 , THR A:27 , HIS A:205 , HOH A:279 , HOH A:286
BINDING SITE FOR RESIDUE SO4 A 1001
03
AC3
SOFTWARE
ARG A:99 , ILE A:100 , THR A:101
BINDING SITE FOR RESIDUE SO4 A 1005
04
AC4
SOFTWARE
ARG A:132 , GLY A:135 , ASP A:136 , GLY A:139 , GLY A:140 , HOH A:326 , HEM A:901
BINDING SITE FOR RESIDUE DTV A 2001
05
AC5
SOFTWARE
HOH B:25 , HOH B:185 , LYS B:313 , HIS B:320 , ALA B:323 , MET B:329 , LEU B:333 , TYR B:430 , VAL B:431 , GLY B:435 , SER B:438 , GLY B:439 , ARG B:477 , PHE B:501 , ASN B:504 , PHE B:508 , DTV B:2002
BINDING SITE FOR RESIDUE HEM B 902
06
AC6
SOFTWARE
HOH B:18 , VAL B:382 , ARG B:385 , GLY B:459 , HOH B:532
BINDING SITE FOR RESIDUE SO4 B 1002
07
AC7
SOFTWARE
HOH B:67 , HOH B:289 , LYS B:470 , LYS B:473 , ARG B:477
BINDING SITE FOR RESIDUE SO4 B 1003
08
AC8
SOFTWARE
HOH B:196 , SER B:326 , THR B:327 , HIS B:505 , ALA B:509
BINDING SITE FOR RESIDUE SO4 B 1004
09
AC9
SOFTWARE
HOH B:61 , HOH B:213 , GLY B:367 , ALA B:369 , GLU B:370 , SER B:371 , HOH B:516
BINDING SITE FOR RESIDUE SO4 B 1008
10
BC1
SOFTWARE
HOH B:3 , HOH B:5 , HOH B:130 , MET B:329 , ARG B:432 , GLY B:435 , GLY B:439 , ILE B:443 , PHE B:508 , HEM B:902
BINDING SITE FOR RESIDUE DTV B 2002
11
BC2
SOFTWARE
HOH C:158 , HOH C:226 , LYS C:613 , HIS C:620 , ALA C:623 , GLU C:624 , TYR C:730 , VAL C:731 , LEU C:734 , GLY C:735 , SER C:738 , GLY C:739 , VAL C:742 , ILE C:743 , ARG C:777 , PHE C:801 , ASN C:804 , PHE C:808 , DTV C:2003
BINDING SITE FOR RESIDUE HEM C 903
12
BC3
SOFTWARE
SER C:626 , THR C:627 , PHE C:628 , HIS C:805 , ALA C:809
BINDING SITE FOR RESIDUE SO4 C 1009
13
BC4
SOFTWARE
HOH C:212 , HOH C:356 , GLY C:667 , ALA C:669 , GLU C:670 , SER C:671
BINDING SITE FOR RESIDUE SO4 C 1010
14
BC5
SOFTWARE
HOH C:403 , VAL C:682 , ARG C:685 , GLY C:759
BINDING SITE FOR RESIDUE SO4 C 1011
15
BC6
SOFTWARE
HOH C:118 , HOH C:202 , HOH C:346 , MET C:629 , ARG C:732 , GLY C:735 , ASP C:736 , GLY C:739 , PHE C:808 , HEM C:903
BINDING SITE FOR RESIDUE DTV C 2003
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 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.
SCOP Domains
(1, 3)
Info
All SCOP Domains
1a: SCOP_d3i8ra_ (A:)
1b: SCOP_d3i8rc_ (C:)
1c: SCOP_d3i8rb_ (B:)
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Organisms
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Class
:
All alpha proteins
(14657)
Fold
:
Heme oxygenase-like
(107)
Superfamily
:
Heme oxygenase-like
(107)
Family
:
Eukaryotic type heme oxygenase
(69)
Protein domain
:
Heme oxygenase HmuO
(16)
Corynebacterium diphtheriae [TaxId: 1717]
(16)
1a
d3i8ra_
A:
1b
d3i8rc_
C:
1c
d3i8rb_
B:
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CATH Domains
(1, 3)
Info
all CATH domains
1a: CATH_3i8rB00 (B:307-515)
1b: CATH_3i8rC00 (C:607-813)
1c: CATH_3i8rA00 (A:7-213)
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Organisms
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Class
:
Mainly Alpha
(13335)
Architecture
:
Up-down Bundle
(3216)
Topology
:
Heme Oxygenase; Chain A
(84)
Homologous Superfamily
:
Heme Oxygenase; Chain A
(84)
Corynebacterium diphtheriae. Organism_taxid: 1717.
(11)
1a
3i8rB00
B:307-515
1b
3i8rC00
C:607-813
1c
3i8rA00
A:7-213
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Pfam Domains
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Asym.Unit (193 KB)
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Biol.Unit 3 (63 KB)
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