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2VUT
Biol. Unit 4
Info
Asym.Unit (526 KB)
Biol.Unit 1 (71 KB)
Biol.Unit 10 (64 KB)
Biol.Unit 11 (64 KB)
Biol.Unit 12 (64 KB)
Biol.Unit 13 (65 KB)
Biol.Unit 14 (65 KB)
Biol.Unit 15 (65 KB)
Biol.Unit 16 (64 KB)
Biol.Unit 17 (14 KB)
Biol.Unit 18 (15 KB)
Biol.Unit 19 (14 KB)
Biol.Unit 2 (71 KB)
Biol.Unit 20 (15 KB)
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Biol.Unit 22 (15 KB)
Biol.Unit 23 (14 KB)
Biol.Unit 24 (14 KB)
Biol.Unit 3 (71 KB)
Biol.Unit 4 (71 KB)
Biol.Unit 5 (72 KB)
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Biol.Unit 8 (71 KB)
Biol.Unit 9 (63 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF NAD-BOUND NMRA-AREA ZINC FINGER COMPLEX
Authors
:
M. Kotaka, C. Johnson, H. K. Lamb, A. R. Hawkins, J. Ren, D. K. Stammers
Date
:
30 May 08 (Deposition) - 29 Jul 08 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P
Biol. Unit 1: A,I (1x)
Biol. Unit 2: B,J (1x)
Biol. Unit 3: C,K (1x)
Biol. Unit 4: D,L (1x)
Biol. Unit 5: E,M (1x)
Biol. Unit 6: F,N (1x)
Biol. Unit 7: G,O (1x)
Biol. Unit 8: H,P (1x)
Biol. Unit 9: A (1x)
Biol. Unit 10: B (1x)
Biol. Unit 11: C (1x)
Biol. Unit 12: D (1x)
Biol. Unit 13: E (1x)
Biol. Unit 14: F (1x)
Biol. Unit 15: G (1x)
Biol. Unit 16: H (1x)
Biol. Unit 17: I (1x)
Biol. Unit 18: J (1x)
Biol. Unit 19: K (1x)
Biol. Unit 20: L (1x)
Biol. Unit 21: M (1x)
Biol. Unit 22: N (1x)
Biol. Unit 23: O (1x)
Biol. Unit 24: P (1x)
Keywords
:
Transcription Regulation, Protein-Protein Interactions, Metal-Binding, Nitrate Assimilation, Zinc-Finger, Dna-Binding, Zinc Fingers, Transcription, Zinc, Area, Nmra, Nucleus, Activator, Gata-Type
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Kotaka, C. Johnson, H. K. Lamb, A. R. Hawkins, J. Ren, D. K. Stammers
Structural Analysis Of The Recognition Of The Negative Regulator Nmra And Dna By The Zinc Finger From The Gata-Type Transcription Factor Area.
J. Mol. Biol. V. 381 373 2008
[
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Hetero Components
(1, 1)
Info
All Hetero Components
1a: CHLORIDE ION (CLa)
1b: CHLORIDE ION (CLb)
1c: CHLORIDE ION (CLc)
1d: CHLORIDE ION (CLd)
1e: CHLORIDE ION (CLe)
1f: CHLORIDE ION (CLf)
1g: CHLORIDE ION (CLg)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
3a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
3b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
3c: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADc)
3d: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADd)
3e: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADe)
3f: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADf)
3g: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADg)
3h: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADh)
4a: ZINC ION (ZNa)
4b: ZINC ION (ZNb)
4c: ZINC ION (ZNc)
4d: ZINC ION (ZNd)
4e: ZINC ION (ZNe)
4f: ZINC ION (ZNf)
4g: ZINC ION (ZNg)
4h: ZINC ION (ZNh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CL
-1
Ligand/Ion
CHLORIDE ION
2
GOL
-1
Ligand/Ion
GLYCEROL
3
NAD
1
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
4
ZN
-1
Ligand/Ion
ZINC ION
[
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Sites
(3, 3)
Info
All Sites
1: AC7 (SOFTWARE)
2: BC5 (SOFTWARE)
3: CC4 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
1
AC7
SOFTWARE
ASN D:12 , THR D:14 , VAL D:36 , HIS D:37
BINDING SITE FOR RESIDUE CL D1353
2
BC5
SOFTWARE
ASN D:12 , THR D:14 , GLY D:15 , ARG D:16 , GLN D:17 , HIS D:37 , ASN D:80 , THR D:81 , THR D:82 , ALA D:85 , MET D:113 , MET D:127 , TRP D:128 , LYS D:131 , ALA D:150 , GLY D:151 , ILE D:152 , TYR D:153 , ASN D:156 , TYR D:276 , HOH D:2009 , HOH D:2210 , HOH D:2211
BINDING SITE FOR RESIDUE NAD D1354
3
CC4
SOFTWARE
CYS L:673 , CYS L:676 , CYS L:694 , CYS L:697
BINDING SITE FOR RESIDUE ZN L1713
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 1)
Info
All PROSITE Patterns/Profiles
1: GATA_ZN_FINGER_1 (L:673-697)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GATA_ZN_FINGER_1
PS00344
GATA-type zinc finger domain.
AREA_EMENI
673-697
1
-
-
-
L:673-697
-
-
-
-
[
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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.
(no "Exon" information available for biological units yet)
SCOP Domains
(2, 16)
Info
All SCOP Domains
1a: SCOP_d2vuta_ (A:)
1b: SCOP_d2vutb_ (B:)
1c: SCOP_d2vutc_ (C:)
1d: SCOP_d2vutd_ (D:)
1e: SCOP_d2vute_ (E:)
1f: SCOP_d2vutf_ (F:)
1g: SCOP_d2vutg_ (G:)
1h: SCOP_d2vuth_ (H:)
2a: SCOP_d2vuti_ (I:)
2b: SCOP_d2vutj_ (J:)
2c: SCOP_d2vutk_ (K:)
2d: SCOP_d2vutl_ (L:)
2e: SCOP_d2vutm_ (M:)
2f: SCOP_d2vutn_ (N:)
2g: SCOP_d2vuto_ (O:)
2h: SCOP_d2vutp_ (P:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
Tyrosine-dependent oxidoreductases
(503)
Protein domain
:
automated matches
(114)
Emericella nidulans [TaxId: 162425]
(3)
1a
d2vuta_
A:
1b
d2vutb_
B:
1c
d2vutc_
C:
1d
d2vutd_
D:
1e
d2vute_
E:
1f
d2vutf_
F:
1g
d2vutg_
G:
1h
d2vuth_
H:
Class
:
Small proteins
(3458)
Fold
:
Glucocorticoid receptor-like (DNA-binding domain)
(292)
Superfamily
:
Glucocorticoid receptor-like (DNA-binding domain)
(292)
Family
:
automated matches
(14)
Protein domain
:
automated matches
(14)
Emericella nidulans [TaxId: 162425]
(3)
2a
d2vuti_
I:
2b
d2vutj_
J:
2c
d2vutk_
K:
2d
d2vutl_
L:
2e
d2vutm_
M:
2f
d2vutn_
N:
2g
d2vuto_
O:
2h
d2vutp_
P:
[
close SCOP info
]
CATH Domains
(3, 24)
Info
all CATH domains
1a: CATH_2vutI00 (I:671-712)
1b: CATH_2vutJ00 (J:671-712)
1c: CATH_2vutL00 (L:671-712)
1d: CATH_2vutM00 (M:670-711)
1e: CATH_2vutN00 (N:671-712)
1f: CATH_2vutP00 (P:671-712)
1g: CATH_2vutK00 (K:671-711)
1h: CATH_2vutO00 (O:671-711)
2a: CATH_2vutA01 (A:3-151,A:191-219,A:275-328)
2b: CATH_2vutC01 (C:3-151,C:191-219,C:275-328)
2c: CATH_2vutE01 (E:3-151,E:191-219,E:275-328)
2d: CATH_2vutH01 (H:3-151,H:191-219,H:275-328)
2e: CATH_2vutF01 (F:3-151,F:191-219,F:275-328)
2f: CATH_2vutG01 (G:3-151,G:191-219,G:275-328)
2g: CATH_2vutB01 (B:3-151,B:191-219,B:275-328)
2h: CATH_2vutD01 (D:3-151,D:191-219,D:275-328)
3a: CATH_2vutA02 (A:152-190,A:220-274,A:329-351)
3b: CATH_2vutB02 (B:152-190,B:220-274,B:329-351)
3c: CATH_2vutC02 (C:152-190,C:220-274,C:329-351)
3d: CATH_2vutD02 (D:152-190,D:220-274,D:329-351)
3e: CATH_2vutE02 (E:152-190,E:220-274,E:329-351)
3f: CATH_2vutF02 (F:152-190,F:220-274,F:329-351)
3g: CATH_2vutG02 (G:152-190,G:220-274,G:329-351)
3h: CATH_2vutH02 (H:152-190,H:220-274,H:329-351)
View:
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(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
2-Layer Sandwich
(8480)
Topology
:
Erythroid Transcription Factor GATA-1; Chain A
(61)
Homologous Superfamily
:
Erythroid Transcription Factor GATA-1, subunit A
(61)
Emericella nidulans. Organism_taxid: 162425.
(3)
1a
2vutI00
I:671-712
1b
2vutJ00
J:671-712
1c
2vutL00
L:671-712
1d
2vutM00
M:670-711
1e
2vutN00
N:671-712
1f
2vutP00
P:671-712
1g
2vutK00
K:671-711
1h
2vutO00
O:671-711
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Emericella nidulans. Organism_taxid: 162425.
(3)
2a
2vutA01
A:3-151,A:191-219,A:275-328
2b
2vutC01
C:3-151,C:191-219,C:275-328
2c
2vutE01
E:3-151,E:191-219,E:275-328
2d
2vutH01
H:3-151,H:191-219,H:275-328
2e
2vutF01
F:3-151,F:191-219,F:275-328
2f
2vutG01
G:3-151,G:191-219,G:275-328
2g
2vutB01
B:3-151,B:191-219,B:275-328
2h
2vutD01
D:3-151,D:191-219,D:275-328
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
UDP-galactose 4-epimerase; domain 1
(99)
Homologous Superfamily
:
UDP-galactose 4-epimerase, domain 1
(99)
Emericella nidulans. Organism_taxid: 162425.
(3)
3a
2vutA02
A:152-190,A:220-274,A:329-351
3b
2vutB02
B:152-190,B:220-274,B:329-351
3c
2vutC02
C:152-190,C:220-274,C:329-351
3d
2vutD02
D:152-190,D:220-274,D:329-351
3e
2vutE02
E:152-190,E:220-274,E:329-351
3f
2vutF02
F:152-190,F:220-274,F:329-351
3g
2vutG02
G:152-190,G:220-274,G:329-351
3h
2vutH02
H:152-190,H:220-274,H:329-351
[
close CATH info
]
Pfam Domains
(2, 16)
Info
all PFAM domains
1a: PFAM_NmrA_2vutH01 (H:8-244)
1b: PFAM_NmrA_2vutH02 (H:8-244)
1c: PFAM_NmrA_2vutH03 (H:8-244)
1d: PFAM_NmrA_2vutH04 (H:8-244)
1e: PFAM_NmrA_2vutH05 (H:8-244)
1f: PFAM_NmrA_2vutH06 (H:8-244)
1g: PFAM_NmrA_2vutH07 (H:8-244)
1h: PFAM_NmrA_2vutH08 (H:8-244)
2a: PFAM_GATA_2vutP01 (P:673-707)
2b: PFAM_GATA_2vutP02 (P:673-707)
2c: PFAM_GATA_2vutP03 (P:673-707)
2d: PFAM_GATA_2vutP04 (P:673-707)
2e: PFAM_GATA_2vutP05 (P:673-707)
2f: PFAM_GATA_2vutP06 (P:673-707)
2g: PFAM_GATA_2vutP07 (P:673-707)
2h: PFAM_GATA_2vutP08 (P:673-707)
View:
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
NADP_Rossmann
(1239)
Family
:
NmrA
(22)
Emericella nidulans (Aspergillus nidulans)
(8)
1a
NmrA-2vutH01
H:8-244
1b
NmrA-2vutH02
H:8-244
1c
NmrA-2vutH03
H:8-244
1d
NmrA-2vutH04
H:8-244
1e
NmrA-2vutH05
H:8-244
1f
NmrA-2vutH06
H:8-244
1g
NmrA-2vutH07
H:8-244
1h
NmrA-2vutH08
H:8-244
Clan
:
Zn_Beta_Ribbon
(109)
Family
:
GATA
(3)
Emericella nidulans (Aspergillus nidulans)
(3)
2a
GATA-2vutP01
P:673-707
2b
GATA-2vutP02
P:673-707
2c
GATA-2vutP03
P:673-707
2d
GATA-2vutP04
P:673-707
2e
GATA-2vutP05
P:673-707
2f
GATA-2vutP06
P:673-707
2g
GATA-2vutP07
P:673-707
2h
GATA-2vutP08
P:673-707
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