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LIPID COMPOSITION ATLAS
Protein Classification
Types
(3 types)
Classes
(11 classes)
Superfamilies
(393 superfamilies)
Families
(668 families)
Species
(539 species)
Localization
(24 types)
All proteins in OPM
(2185 proteins)
Protein Links
PDB Sum
,
PDB
,
OCA
,
MPKS
,
PDBTM
,
MPDB
,
CGDB
Type:
1. Transmembrane
(3 classes)
Class:
1.1. Alpha-helical polytopic
(72 superfamilies)
Superfamily:
1.1.26. APC (Amino acid-Polyamine-organoCation) superfamily (6 families)
2.A.3 (TCDB)
CL0062
,
PDBsum
Family:
1.1.26.06.
Nucleobase:Cation Symporter-2
2.A.40 (TCDB)
PF00860
,
PDBsum
Uracil transporter UraA
Escherichia coli
(
3qe7
)
1.1.26.01.
Neurotransmitter: sodium symporter
2.A.22 (TCDB)
PF00209
,
PDBsum
Leucine transporter LeuT, inward-facing conformation
Aquifex aeolicus
(
3tt3
)
Leucine transporter LeuT, outward-facing conformation, from bicelles
Aquifex aeolicus
(
4fxz
, 4fy0)
Leucine transporter LeuT, outward-facing substrate-bound conformation
Aquifex aeolicus
(
2a65
, 2q6h, 2q72, 2qb4, 2qei, 2qju, 3f3c, 3f3d, 3f3e, 3f48, 3f4i, 3f4j, 3gjc, 3gjd, 3gwu, 3gwv, 3gww, 3mpn, 3mpq, 3qs5, 3qs6, 3tu0, 3usg, 3usi, 3usj, 3usk, 3usl, 3usm, 3uso, 3usp, 4hmk, 4hod)
Leucine transporter LeuT, outward-facing substrate-free conformation
Aquifex aeolicus
(
3tt1
, 3f3a, 3gs4)
1.1.26.02.
Nucleobase-cation symporter 1
2.A.39 (TCDB)
PF02133
,
PDBsum
Sodium-hydantoin transporter Mhp1, inward-facing conformation
Mycobacterium liquefaciens
(
2x79
)
Sodium-hydantoin transporter Mhp1, ligand-bound
Mycobacterium liquefaciens
(
2jlo
)
Sodium-hydantoin transporter Mhp1, outward-facing conformation
Mycobacterium liquefaciens
(
2jln
)
1.1.26.03.
Solute:sodium symporter
2.A.21 (TCDB)
PF00474
,
PDBsum
Sodium/sugar symporter vSGLT, substrate-bound
Vibrio parahaemolyticus
(
3dh4
)
Sodium/sugar symporter vSGLT, substrate-free
Vibrio parahaemolyticus
(
2xq2
)
1.1.26.04.
Betaine/carnitine/choline transporters
2.A.15 (TCDB)
PF02028
,
PDBsum
Glycine betaine transporter BetP, alternative inward-facing open conformation
Corynebacterium glutamicum
(
3p03
)
Glycine betaine transporter BetP, asymmetric trimer, conformation 1
Corynebacterium glutamicum
(
4ain
)
Glycine betaine transporter BetP, asymmetric trimer, conformation 2
Corynebacterium glutamicum
(
4doj
)
Glycine betaine transporter BetP, substrate-bound
Corynebacterium glutamicum
(
2wit
)
L-carnitine/gamma-butyrobetaine antiporter CaiT, open inward-facing conformation
Escherichia coli
(
2wsx
)
Proteus mirabilis
(
2wsw
)
L-carnitine/gamma-butyrobetaine antiporter CaiT, substrate-bound
Escherichia coli
(
3hfx
)
1.1.26.05.
Amino acid-Polyamine-Organocation (APC) family
2.A.3 (TCDB)
PF00324
,
PDBsum
Amino acid transporter ApcT, inward-facing conformation
Methanococcus jannaschii
(
3gia
, 3gi8, 3gi9)
Arginine/agmatine antiporter (AdiC), outward-facing conformation
Escherichia coli
(
3h5m
, 3lrb, 3lrc, 3lrc, 3lrc)
Salmonella enterica
(
3hqk
, 3ncy)
Arginine/agmatine transporter (AdiC), substrate-bound
Escherichia coli
(
3l1l
)
Arginine/agmatine transporter (AdiC), intermediate conformation
Escherichia coli
(
3ob6
)
Glutamate/gamma-aminobutyrate antiporter
Escherichia coli
(
4dji
, 4djk)
See list of these PDB codes
1.1.26. APC (Amino acid-Polyamine-organoCation) superfamily (6 families)
2.A.3 (TCDB)
CL0062
,
PDBsum
(23 proteins)
Family
Protein Name
PDB ID
Species
Localization
Num. Subunits
Num. TM Sec. Structs.
Hydrophobic Thickness or Depth (Å)
Tilt Angle (°)
ΔG
transfer
(kcal/mol)
1.1.26.01.
Leucine transporter LeuT, outward-facing substrate-bound conformation
2a65
Aquifex aeolicus
Bact. Gram-neg inner
2
28
29.8 ± 0.5
0 ± 0
-157.9
1.1.26.01.
Leucine transporter LeuT, inward-facing conformation
3tt3
Aquifex aeolicus
Bact. Gram-neg inner
1
12
27.4 ± 1.6
9 ± 0
-89.1
1.1.26.01.
Leucine transporter LeuT, outward-facing conformation, from bicelles
4fxz
Aquifex aeolicus
Bact. Gram-neg inner
2
24
28.0 ± 0.6
0 ± 0
-144.3
1.1.26.01.
Leucine transporter LeuT, outward-facing substrate-free conformation
3tt1
Aquifex aeolicus
Bact. Gram-neg inner
2
24
28.2 ± 1.2
0 ± 0
-160.8
1.1.26.02.
Sodium-hydantoin transporter Mhp1, outward-facing conformation
2jln
Mycobacterium liquefaciens
Bact. Gram-pos plas.
1
12
29.8 ± 1.5
16 ± 0
-98.9
1.1.26.02.
Sodium-hydantoin transporter Mhp1, ligand-bound
2jlo
Mycobacterium liquefaciens
Bact. Gram-pos plas.
1
12
31.2 ± 0.8
15 ± 0
-96.5
1.1.26.02.
Sodium-hydantoin transporter Mhp1, inward-facing conformation
2x79
Mycobacterium liquefaciens
Bact. Gram-pos plas.
1
12
30.7 ± 1.1
13 ± 0
-85.0
1.1.26.03.
Sodium/sugar symporter vSGLT, substrate-free
2xq2
Vibrio parahaemolyticus
Bact. Gram-neg inner
2
30
30.4 ± 0.6
0 ± 0
-162.7
1.1.26.03.
Sodium/sugar symporter vSGLT, substrate-bound
3dh4
Vibrio parahaemolyticus
Bact. Gram-neg inner
2
30
30.0 ± 0.7
0 ± 0
-184.0
1.1.26.04.
L-carnitine/gamma-butyrobetaine antiporter CaiT, open inward-facing conformation
2wsx
Escherichia coli
Bact. Gram-neg inner
3
42
28.6 ± 0.7
7 ± 0
-212.7
1.1.26.04.
L-carnitine/gamma-butyrobetaine antiporter CaiT, open inward-facing conformation
2wsw
Proteus mirabilis
Bact. Gram-neg inner
3
42
29.8 ± 0.5
0 ± 0
-218.9
1.1.26.04.
Glycine betaine transporter BetP, substrate-bound
2wit
Corynebacterium glutamicum
Bact. Gram-pos plas.
3
36
30.4 ± 1.2
0 ± 0
-198.6
1.1.26.04.
Glycine betaine transporter BetP, alternative inward-facing open conformation
3p03
Corynebacterium glutamicum
Bact. Gram-pos plas.
3
36
29.8 ± 0.7
1 ± 0
-160.9
1.1.26.04.
Glycine betaine transporter BetP, asymmetric trimer, conformation 2
4doj
Corynebacterium glutamicum
Bact. Gram-pos plas.
3
36
30.0 ± 0.6
0 ± 0
-186.4
1.1.26.04.
Glycine betaine transporter BetP, asymmetric trimer, conformation 1
4ain
Corynebacterium glutamicum
Bact. Gram-pos plas.
3
36
29.8 ± 0.6
0 ± 0
-198.8
1.1.26.04.
L-carnitine/gamma-butyrobetaine antiporter CaiT, substrate-bound
3hfx
Escherichia coli
Bact. Gram-neg inner
3
42
29.8 ± 0.8
0 ± 0
-203.5
1.1.26.05.
Amino acid transporter ApcT, inward-facing conformation
3gia
Methanococcus jannaschii
Archaebac.
1
12
29.9 ± 1.4
11 ± 2
-92.1
1.1.26.05.
Arginine/agmatine transporter (AdiC), substrate-bound
3l1l
Escherichia coli
Bact. Gram-neg inner
2
24
28.8 ± 1.4
2 ± 2
-132.0
1.1.26.05.
Arginine/agmatine transporter (AdiC), intermediate conformation
3ob6
Escherichia coli
Bact. Gram-neg inner
2
24
29.8 ± 1.4
3 ± 1
-158.7
1.1.26.05.
Arginine/agmatine antiporter (AdiC), outward-facing conformation
3h5m
Escherichia coli
Bact. Gram-neg inner
2
26
29.0 ± 0.8
0 ± 0
-128.9
1.1.26.05.
Glutamate/gamma-aminobutyrate antiporter
4dji
Escherichia coli
Bact. Gram-neg inner
1
12
30.0 ± 1.1
10 ± 1
-98.9
1.1.26.05.
Arginine/agmatine antiporter (AdiC), outward-facing conformation
3hqk
Salmonella enterica
Bact. Gram-neg inner
2
26
29.8 ± 1.0
0 ± 0
-124.6
1.1.26.06.
Uracil transporter UraA
3qe7
Escherichia coli
Bact. Gram-neg inner
1
14
27.7 ± 1.2
16 ± 0
-79.3
Copyright © 2005-2013
Andrei Lomize
,
Mikhail Lomize
and
Irina Pogozheva
University of Michigan, Ann Arbor, MI 48109 USA