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Asym. Unit
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Asym.Unit (171 KB)
Biol.Unit 1 (85 KB)
Biol.Unit 2 (85 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE HEME DOMAIN OF FLAVOCYTOCHROME B2 IN COMPLEX WITH FAB B2B4
Authors
:
B. Golinelli-Pimpaneau, F. Lederer, K. H. D. Le
Date
:
20 Nov 09 (Deposition) - 26 May 10 (Release) - 18 Aug 10 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B,H,J,K,L
Biol. Unit 1: A,J,K (1x)
Biol. Unit 2: B,H,L (1x)
Keywords
:
Electron Transfer, Epitope, Domain Mobility, Flavocytochrome B2, Antibody, Fab, Heme Domain, Electron Transport, Flavoprotein, Fmn, Heme, Metal-Binding, Mitochondrion, Oxidoreductase, Respiratory Chain, Transit Peptide, Transport
(Keyword Search:
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Reference
:
K. H. Diep Le, F. Lederer, B. Golinelli-Pimpaneau
Structural Evidence For The Functional Importance Of The Heme Domain Mobility In Flavocytochrome B2.
J. Mol. Biol. V. 400 518 2010
(for further references see the
PDB file header
)
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Hetero Components
(1, 2)
Info
All Hetero Components
1a: PROTOPORPHYRIN IX CONTAINING FE (HEMa)
1b: PROTOPORPHYRIN IX CONTAINING FE (HEMb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
HEM
2
Ligand/Ion
PROTOPORPHYRIN IX CONTAINING FE
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Sites
(2, 2)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
ILE A:29 , PHE A:39 , HIS A:43 , PRO A:44 , VAL A:49 , VAL A:58 , PHE A:62 , LEU A:65 , HIS A:66 , ILE A:71 , TYR A:74 , ILE A:75 , HOH A:276 , SER K:52 , TYR K:53 , LYS L:152 , GLY L:155
BINDING SITE FOR RESIDUE HEM A 101
2
AC2
SOFTWARE
ILE B:29 , PHE B:39 , HIS B:43 , PRO B:44 , GLY B:45 , VAL B:49 , VAL B:58 , PHE B:62 , LEU B:65 , HIS B:66 , TYR B:74 , ILE B:75 , HOH B:325 , TYR H:33 , SER H:52 , TYR H:53 , GLY H:54 , SER H:56 , LYS J:152 , GLY J:155
BINDING SITE FOR RESIDUE HEM B 101
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(2, 4)
Info
All PROSITE Patterns/Profiles
1: CYTOCHROME_B5_2 (A:8-85,B:8-85)
2: CYTOCHROME_B5_1 (A:39-46,B:39-46)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CYTOCHROME_B5_2
PS50255
Cytochrome b5 family, heme-binding domain profile.
CYB2_YEAST
88-165
2
A:8-85
B:8-85
2
CYTOCHROME_B5_1
PS00191
Cytochrome b5 family, heme-binding domain signature.
CYB2_YEAST
119-126
2
A:39-46
B:39-46
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Exons
(1, 2)
Info
All Exons
Exon 1.1 (A:6-97 | B:6-97)
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All Exon Boundaries
1: Boundary -/1.1
2: Boundary 1.1/-
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
ENSEMBL
UniProtKB
PDB
No.
Transcript ID
Exon
Exon ID
Genome Location
Length
ID
Location
Length
Count
Location
Length
1.1
YML054C
1
YML054C.1
XIII:167308-165533
1776
CYB2_YEAST
1-591
591
2
A:6-97
B:6-97
92
92
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SCOP Domains
(2, 6)
Info
All SCOP Domains
1a: SCOP_d3ks0j1 (J:1-110)
1b: SCOP_d3ks0j2 (J:111-212)
1c: SCOP_d3ks0l1 (L:1-110)
1d: SCOP_d3ks0l2 (L:111-212)
2a: SCOP_d3ks0a_ (A:)
2b: SCOP_d3ks0b_ (B:)
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Protein Domains
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)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Immunoglobulin-like beta-sandwich
(7299)
Superfamily
:
Immunoglobulin
(5995)
Family
:
automated matches
(864)
Protein domain
:
automated matches
(864)
Mouse (Mus musculus) [TaxId: 10090]
(360)
1a
d3ks0j1
J:1-110
1b
d3ks0j2
J:111-212
1c
d3ks0l1
L:1-110
1d
d3ks0l2
L:111-212
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
Cytochrome b5-like heme/steroid binding domain
(64)
Superfamily
:
Cytochrome b5-like heme/steroid binding domain
(64)
Family
:
automated matches
(5)
Protein domain
:
automated matches
(5)
Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
(1)
2a
d3ks0a_
A:
2b
d3ks0b_
B:
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CATH Domains
(2, 6)
Info
all CATH domains
1a: CATH_3ks0A00 (A:6-97)
1b: CATH_3ks0B00 (B:6-97)
2a: CATH_3ks0H02 (H:118-213)
2b: CATH_3ks0K02 (K:118-213)
2c: CATH_3ks0H01 (H:1-117)
2d: CATH_3ks0K01 (K:1-117)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Roll
(3276)
Topology
:
Flavocytochrome B2; Chain A, domain 1
(56)
Homologous Superfamily
:
Flavocytochrome B2, subunit A, domain 1
(56)
Mouse (Mus musculus)
(1)
1a
3ks0A00
A:6-97
1b
3ks0B00
B:6-97
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Immunoglobulins
(2282)
Mouse (Mus musculus)
(152)
2a
3ks0H02
H:118-213
2b
3ks0K02
K:118-213
2c
3ks0H01
H:1-117
2d
3ks0K01
K:1-117
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Pfam Domains
(1, 2)
Info
all PFAM domains
1a: PFAM_Cyt_b5_3ks0B01 (B:10-97)
1b: PFAM_Cyt_b5_3ks0B02 (B:10-97)
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Clan
:
no clan defined [family: Cyt-b5]
(29)
Family
:
Cyt-b5
(29)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast)
(9)
1a
Cyt-b5-3ks0B01
B:10-97
1b
Cyt-b5-3ks0B02
B:10-97
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Asym.Unit (171 KB)
Header - Asym.Unit
Biol.Unit 1 (85 KB)
Header - Biol.Unit 1
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