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Getting 'Biological Unit' information from database.
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3PFW
Biol. Unit 1
Info
Asym.Unit (228 KB)
Biol.Unit 1 (437 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF HUMAN SPERM-SPECIFIC GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE (GAPDS) COMPLEX WITH NAD, A BINARY FORM
Authors
:
A. Chaikuad, N. Shafqat, W. W. Yue, R. Cocking, J. E. Bray, F. Von Delft, C. H. Arrowsmith, A. M. Edwards, J. Weigelt, C. Bountra, U. Oppermann, Structural Genomics Consortium (Sgc)
Date
:
29 Oct 10 (Deposition) - 15 Dec 10 (Release) - 20 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.15
Chains
:
Asym. Unit : O,P
Biol. Unit 1: O,P (2x)
Keywords
:
Structural Genomics, Structural Genomics Consortium, Sgc, Oxidoreductase, Sperm-Specific Isozyme
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Chaikuad, N. Shafqat, R. Al-Mokhtar, G. Cameron, A. R. Clarke, R. L. Brady, U. Oppermann, J. Frayne, W. W. Yue
Structure And Kinetic Characterization Of Human Sperm-Specific Glyceraldehyde-3-Phosphate Dehydrogenase, Gapds.
Biochem. J. V. 435 401 2011
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Hetero Components
(2, 14)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
2a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
2b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
View:
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Label:
No.
Name
Count
Type
Full Name
1
GOL
10
Ligand/Ion
GLYCEROL
2
NAD
4
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
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Sites
(7, 7)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
HOH O:27 , HOH O:30 , HOH O:31 , HOH O:38 , HOH O:47 , HOH O:55 , ASN O:81 , GLY O:82 , PHE O:83 , GLY O:84 , ARG O:85 , ILE O:86 , ASP O:106 , PRO O:107 , PHE O:108 , ILE O:109 , LYS O:151 , SER O:169 , THR O:170 , GLY O:171 , TYR O:173 , SER O:193 , ALA O:194 , ALA O:255 , ASN O:388 , TYR O:392 , GOL O:416 , HOH O:423 , HOH O:444 , HOH O:457 , HOH O:459 , HOH O:491
BINDING SITE FOR RESIDUE NAD O 2
2
AC2
SOFTWARE
GLY O:205 , VAL O:206 , GLU O:208 , ASN O:209 , LYS O:234
BINDING SITE FOR RESIDUE GOL O 1
3
AC3
SOFTWARE
SER O:223 , THR O:225 , HIS O:251 , THR O:283 , ALA O:304 , ARG O:306 , HOH O:499
BINDING SITE FOR RESIDUE GOL O 415
4
AC4
SOFTWARE
NAD O:2 , THR O:254 , THR O:256 , ARG O:306 , HOH O:459
BINDING SITE FOR RESIDUE GOL O 416
5
AC5
SOFTWARE
ASN P:81 , GLY P:82 , PHE P:83 , GLY P:84 , ARG P:85 , ILE P:86 , ASP P:106 , PRO P:107 , PHE P:108 , LYS P:151 , SER P:169 , THR P:170 , GLY P:171 , TYR P:173 , SER P:193 , ALA P:194 , CYS P:224 , ALA P:255 , PRO P:263 , ASN P:388 , TYR P:392 , GOL P:416 , HOH P:440 , HOH P:448 , HOH P:451 , HOH P:474 , HOH P:489 , HOH P:517 , HOH P:525 , HOH P:555
BINDING SITE FOR RESIDUE NAD P 1
6
AC6
SOFTWARE
SER P:223 , CYS P:224 , THR P:225 , HIS P:251 , THR P:283 , ALA P:304 , ARG P:306 , HOH P:492
BINDING SITE FOR RESIDUE GOL P 415
7
AC7
SOFTWARE
NAD P:1 , THR P:254 , THR P:256 , ARG P:306 , HOH P:451 , HOH P:517 , HOH P:531
BINDING SITE FOR RESIDUE GOL P 416
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SAPs(SNPs)/Variants
(1, 4)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
1: VAR_049219 (D110N, chain O/P, )
View:
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dbSNP
PDB
No.
Source
Variant ID
Variant
UniProt ID
Status
ID
Chain
Variant
1
UniProt
VAR_049219
D
110
N
G3PT_HUMAN
Polymorphism
2285514
O/P
D
110
N
SNP/SAP Summary Statistics
(UniProtKB/Swiss-Prot)
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: GAPDH (O:222-229,P:222-229)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
GAPDH
PS00071
Glyceraldehyde 3-phosphate dehydrogenase active site.
G3PT_HUMAN
222-229
4
O:222-229
P:222-229
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Exons
(0, 0)
Info
All Exons
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All Exon Boundaries
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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
All SCOP Domains
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Sorry, no Info available
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Gp_dh_C_3pfwP01 (P:229-386)
1b: PFAM_Gp_dh_C_3pfwP02 (P:229-386)
2a: PFAM_Gp_dh_N_3pfwP03 (P:76-224)
2b: PFAM_Gp_dh_N_3pfwP04 (P:76-224)
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Clans
(
)
(
)
Families
(
)
(
)
Organisms
(
)
(
)
Clan
:
GADPH_aa-bio_dh
(59)
Family
:
Gp_dh_C
(38)
Homo sapiens (Human)
(3)
1a
Gp_dh_C-3pfwP01
P:229-386
1b
Gp_dh_C-3pfwP02
P:229-386
Clan
:
NADP_Rossmann
(1239)
Family
:
Gp_dh_N
(38)
Homo sapiens (Human)
(3)
2a
Gp_dh_N-3pfwP03
P:76-224
2b
Gp_dh_N-3pfwP04
P:76-224
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