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2FG6
Biol. Unit 3
Info
Asym.Unit (327 KB)
Biol.Unit 1 (165 KB)
Biol.Unit 2 (161 KB)
Biol.Unit 3 (320 KB)
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(1)
Title
:
N-SUCCINYL-L-ORNITHINE TRANSCARBAMYLASE FROM B. FRAGILIS COMPLEXED WITH SULFATE AND N-SUCCINYL-L-NORVALINE
Authors
:
D. Shi, X. Yu, M. H. Malamy, N. M. Allewell, T. Mendel
Date
:
21 Dec 05 (Deposition) - 23 May 06 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.80
Chains
:
Asym. Unit : C,D,E,X,Y,Z
Biol. Unit 1: X,Y,Z (1x)
Biol. Unit 2: C,D,E (1x)
Biol. Unit 3: C,D,E,X,Y,Z (1x)
Keywords
:
Alpha/Beta, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
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Reference
:
D. Shi, H. Morizono, J. Cabrera-Luque, X. Yu, L. Roth, M. H. Malamy, N. M. Allewell, M. Tuchman
Structure And Catalytic Mechanism Of A Novel N-Succinyl-L-Ornithine Transcarbamylase In Arginine Biosynthesis Of Bacteroides Fragilis.
J. Biol. Chem. V. 281 20623 2006
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Hetero Components
(2, 14)
Info
All Hetero Components
1a: N-(3-CARBOXYPROPANOYL)-L-NORVALINE (SN0a)
1b: N-(3-CARBOXYPROPANOYL)-L-NORVALINE (SN0b)
1c: N-(3-CARBOXYPROPANOYL)-L-NORVALINE (SN0c)
1d: N-(3-CARBOXYPROPANOYL)-L-NORVALINE (SN0d)
1e: N-(3-CARBOXYPROPANOYL)-L-NORVALINE (SN0e)
1f: N-(3-CARBOXYPROPANOYL)-L-NORVALINE (SN0f)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
SN0
6
Ligand/Ion
N-(3-CARBOXYPROPANOYL)-L-NORVALINE
2
SO4
8
Ligand/Ion
SULFATE ION
[
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Sites
(14, 14)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER X:47 , LEU X:48 , ARG X:49 , THR X:50 , ARG X:110 , LEU X:275 , HOH X:382 , TRP Z:75
BINDING SITE FOR RESIDUE SO4 X 346
02
AC2
SOFTWARE
TRP X:75 , SER Y:47 , LEU Y:48 , ARG Y:49 , THR Y:50 , ARG Y:110 , LEU Y:275 , HOH Y:364
BINDING SITE FOR RESIDUE SO4 Y 348
03
AC3
SOFTWARE
TRP Y:75 , SER Z:47 , LEU Z:48 , ARG Z:49 , THR Z:50 , ARG Z:110 , LEU Z:275 , PRO Z:276 , SN0 Z:349 , HOH Z:363 , HOH Z:390
BINDING SITE FOR RESIDUE SO4 Z 350
04
AC4
SOFTWARE
SER C:47 , LEU C:48 , ARG C:49 , THR C:50 , ARG C:110 , PRO C:276 , SN0 C:351 , TRP E:75
BINDING SITE FOR RESIDUE SO4 C 352
05
AC5
SOFTWARE
TRP C:75 , SER D:47 , LEU D:48 , ARG D:49 , THR D:50 , ARG D:110 , LEU D:275 , SN0 D:353
BINDING SITE FOR RESIDUE SO4 D 354
06
AC6
SOFTWARE
TRP D:75 , SER E:47 , LEU E:48 , ARG E:49 , THR E:50 , ARG E:110 , LEU E:275 , PRO E:276 , SN0 E:355 , HOH E:361
BINDING SITE FOR RESIDUE SO4 E 356
07
AC7
SOFTWARE
ARG X:35 , ARG Y:35 , ARG Z:35
BINDING SITE FOR RESIDUE SO4 X 357
08
AC8
SOFTWARE
ARG C:35 , ARG D:35 , ARG E:35
BINDING SITE FOR RESIDUE SO4 C 358
09
AC9
SOFTWARE
PHE X:112 , GLU X:142 , HIS X:176 , ARG X:178 , LEU X:180 , VAL X:184 , LYS X:236 , LEU X:275 , ARG X:278 , TRP Z:75 , PRO Z:90
BINDING SITE FOR RESIDUE SN0 X 345
10
BC1
SOFTWARE
TRP X:75 , PRO X:90 , PHE Y:112 , GLU Y:142 , HIS Y:176 , ARG Y:178 , LEU Y:180 , PRO Y:181 , LYS Y:236 , LEU Y:275 , ARG Y:278 , HOH Y:361 , HOH Y:382
BINDING SITE FOR RESIDUE SN0 Y 347
11
BC2
SOFTWARE
TRP Y:75 , PRO Y:90 , HOH Y:379 , GLU Z:142 , HIS Z:176 , ARG Z:178 , LEU Z:180 , LYS Z:236 , LEU Z:275 , ARG Z:278 , SO4 Z:350 , HOH Z:373
BINDING SITE FOR RESIDUE SN0 Z 349
12
BC3
SOFTWARE
PHE C:112 , GLU C:142 , HIS C:176 , ARG C:178 , LEU C:180 , PRO C:181 , LYS C:236 , LEU C:275 , ARG C:278 , SO4 C:352 , PRO E:90 , HOH E:390
BINDING SITE FOR RESIDUE SN0 C 351
13
BC4
SOFTWARE
TRP C:75 , PRO C:90 , PHE D:112 , GLU D:142 , HIS D:176 , ARG D:178 , PRO D:181 , LYS D:236 , ARG D:278 , SO4 D:354
BINDING SITE FOR RESIDUE SN0 D 353
14
BC5
SOFTWARE
TRP D:75 , PRO D:90 , PHE E:112 , GLU E:142 , HIS E:176 , ARG E:178 , LEU E:180 , LYS E:236 , LEU E:275 , ARG E:278 , SO4 E:356 , HOH E:382
BINDING SITE FOR RESIDUE SN0 E 355
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
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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
(1, 12)
Info
All SCOP Domains
1a: SCOP_d2fg6c1 (C:-2-163)
1b: SCOP_d2fg6c2 (C:164-318)
1c: SCOP_d2fg6d1 (D:-3-163)
1d: SCOP_d2fg6d2 (D:164-318)
1e: SCOP_d2fg6e1 (E:-3-163)
1f: SCOP_d2fg6e2 (E:164-318)
1g: SCOP_d2fg6x1 (X:-3-163)
1h: SCOP_d2fg6x2 (X:164-318)
1i: SCOP_d2fg6y1 (Y:-3-163)
1j: SCOP_d2fg6y2 (Y:164-318)
1k: SCOP_d2fg6z1 (Z:-1-163)
1l: SCOP_d2fg6z2 (Z:164-318)
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
ATC-like
(129)
Superfamily
:
Aspartate/ornithine carbamoyltransferase
(122)
Family
:
Aspartate/ornithine carbamoyltransferase
(87)
Protein domain
:
Transcarbamylase-like protein
(4)
Bacteroides fragilis [TaxId: 817]
(4)
1a
d2fg6c1
C:-2-163
1b
d2fg6c2
C:164-318
1c
d2fg6d1
D:-3-163
1d
d2fg6d2
D:164-318
1e
d2fg6e1
E:-3-163
1f
d2fg6e2
E:164-318
1g
d2fg6x1
X:-3-163
1h
d2fg6x2
X:164-318
1i
d2fg6y1
Y:-3-163
1j
d2fg6y2
Y:164-318
1k
d2fg6z1
Z:-1-163
1l
d2fg6z2
Z:164-318
[
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CATH Domains
(1, 12)
Info
all CATH domains
1a: CATH_2fg6C02 (C:150-301)
1b: CATH_2fg6D02 (D:150-301)
1c: CATH_2fg6Z01 (Z:-1-147,Z:302-318)
1d: CATH_2fg6C01 (C:-2-147,C:302-318)
1e: CATH_2fg6D01 (D:-3-147,D:302-318)
1f: CATH_2fg6E01 (E:-3-147,E:302-318)
1g: CATH_2fg6X01 (X:-3-147,X:302-318)
1h: CATH_2fg6Y01 (Y:-3-147,Y:302-318)
1i: CATH_2fg6E02 (E:150-301)
1j: CATH_2fg6X02 (X:150-301)
1k: CATH_2fg6Y02 (Y:150-301)
1l: CATH_2fg6Z02 (Z:150-301)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.1370, no name defined]
(91)
Bacteroides fragilis nctc 9343. Organism_taxid: 272559. Strain: nctc 9343.
(2)
1a
2fg6C02
C:150-301
1b
2fg6D02
D:150-301
1c
2fg6Z01
Z:-1-147,Z:302-318
1d
2fg6C01
C:-2-147,C:302-318
1e
2fg6D01
D:-3-147,D:302-318
1f
2fg6E01
E:-3-147,E:302-318
1g
2fg6X01
X:-3-147,X:302-318
1h
2fg6Y01
Y:-3-147,Y:302-318
1i
2fg6E02
E:150-301
1j
2fg6X02
X:150-301
1k
2fg6Y02
Y:150-301
1l
2fg6Z02
Z:150-301
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Asymmetric Unit 1
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