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3S55
Asym. Unit
Info
Asym.Unit (672 KB)
Biol.Unit 1 (334 KB)
Biol.Unit 2 (334 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF A PUTATIVE SHORT-CHAIN DEHYDROGENASE/REDUCTASE FROM MYCOBACTERIUM ABSCESSUS BOUND TO NAD
Authors
:
Seattle Structural Genomics Center For Infectious Disease (S
Date
:
20 May 11 (Deposition) - 08 Jun 11 (Release) - 08 Feb 17 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.10
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Structural Genomics, Seattle Structural Genomics Center For Infectious Disease, Ssgcid, Ortholog, Sdr, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
D. H. Haft, P. G. Pierce, S. J. Mayclin, A. Sullivan, A. S. Gardberg, J. Abendroth, D. W. Begley, I. Q. Phan, B. L. Staker, P. J. Myler, V. M. Marathias, D. D. Lorimer, T. E. Edwards
Mycofactocin-Associated Mycobacterial Dehydrogenases With Non-Exchangeable Nad Cofactors.
Sci Rep V. 7 41074 2017
(for further references see the
PDB file header
)
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Hetero Components
(2, 16)
Info
All Hetero Components
1a: CALCIUM ION (CAa)
1b: CALCIUM ION (CAb)
1c: CALCIUM ION (CAc)
1d: CALCIUM ION (CAd)
1e: CALCIUM ION (CAe)
1f: CALCIUM ION (CAf)
1g: CALCIUM ION (CAg)
1h: CALCIUM ION (CAh)
2a: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADa)
2b: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADb)
2c: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADc)
2d: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADd)
2e: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADe)
2f: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADf)
2g: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADg)
2h: NICOTINAMIDE-ADENINE-DINUCLEOTIDE (NADh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
CA
8
Ligand/Ion
CALCIUM ION
2
NAD
8
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
[
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Sites
(16, 16)
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)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:14 , ARG A:17 , GLY A:18 , MET A:19 , ASP A:38 , ARG A:39 , ALA A:51 , VAL A:75 , ASP A:76 , VAL A:77 , ASN A:103 , ALA A:104 , GLY A:105 , ILE A:106 , THR A:126 , VAL A:153 , SER A:154 , SER A:155 , TYR A:168 , LYS A:172 , PRO A:198 , GLY A:199 , ASN A:200 , ILE A:201 , THR A:203 , PRO A:204 , MET A:205 , THR A:206 , HOH A:284 , HOH A:294 , HOH A:421 , HOH A:583 , HOH A:787
BINDING SITE FOR RESIDUE NAD A 279
02
AC2
SOFTWARE
GLY B:14 , ARG B:17 , GLY B:18 , MET B:19 , ASP B:38 , ARG B:39 , ALA B:51 , VAL B:75 , ASP B:76 , VAL B:77 , ASN B:103 , ALA B:104 , GLY B:105 , ILE B:106 , THR B:126 , VAL B:153 , SER B:154 , TYR B:168 , LYS B:172 , PRO B:198 , GLY B:199 , ASN B:200 , ILE B:201 , THR B:203 , PRO B:204 , MET B:205 , THR B:206 , HOH B:288 , HOH B:289 , HOH B:293 , HOH B:713
BINDING SITE FOR RESIDUE NAD B 279
03
AC3
SOFTWARE
GLY C:14 , ARG C:17 , MET C:19 , ASP C:38 , ARG C:39 , LEU C:50 , ALA C:51 , VAL C:75 , ASP C:76 , VAL C:77 , ASN C:103 , ALA C:104 , GLY C:105 , THR C:126 , VAL C:153 , SER C:154 , TYR C:168 , LYS C:172 , PRO C:198 , GLY C:199 , ASN C:200 , ILE C:201 , THR C:203 , PRO C:204 , MET C:205 , THR C:206 , HOH C:281 , HOH C:282 , HOH C:299 , HOH C:300 , HOH C:320 , HOH C:515
BINDING SITE FOR RESIDUE NAD C 279
04
AC4
SOFTWARE
GLY D:14 , ARG D:17 , GLY D:18 , MET D:19 , ASP D:38 , ARG D:39 , LEU D:50 , ALA D:51 , VAL D:75 , ASP D:76 , VAL D:77 , ASN D:103 , ALA D:104 , GLY D:105 , ILE D:106 , THR D:126 , VAL D:153 , SER D:154 , SER D:155 , TYR D:168 , LYS D:172 , PRO D:198 , GLY D:199 , ILE D:201 , THR D:203 , PRO D:204 , MET D:205 , THR D:206 , HOH D:284 , HOH D:285 , HOH D:298 , HOH D:789 , HOH D:1050
BINDING SITE FOR RESIDUE NAD D 279
05
AC5
SOFTWARE
GLY E:14 , ARG E:17 , MET E:19 , ASP E:38 , ARG E:39 , LEU E:50 , ALA E:51 , VAL E:75 , ASP E:76 , VAL E:77 , ASN E:103 , ALA E:104 , GLY E:105 , ILE E:106 , THR E:126 , VAL E:153 , SER E:154 , TYR E:168 , LYS E:172 , PRO E:198 , GLY E:199 , ILE E:201 , THR E:203 , PRO E:204 , MET E:205 , THR E:206 , HOH E:281 , HOH E:298 , HOH E:300
BINDING SITE FOR RESIDUE NAD E 279
06
AC6
SOFTWARE
GLY F:14 , ARG F:17 , GLY F:18 , MET F:19 , ASP F:38 , ARG F:39 , ALA F:51 , VAL F:75 , ASP F:76 , VAL F:77 , ASN F:103 , ALA F:104 , GLY F:105 , ILE F:106 , THR F:126 , VAL F:153 , SER F:154 , TYR F:168 , LYS F:172 , PRO F:198 , GLY F:199 , ASN F:200 , ILE F:201 , THR F:203 , PRO F:204 , MET F:205 , THR F:206 , HOH F:287 , HOH F:288 , HOH F:296 , HOH F:302
BINDING SITE FOR RESIDUE NAD F 279
07
AC7
SOFTWARE
GLY G:14 , ARG G:17 , GLY G:18 , MET G:19 , ASP G:38 , ARG G:39 , LEU G:50 , ALA G:51 , VAL G:75 , ASP G:76 , VAL G:77 , ASN G:103 , ALA G:104 , GLY G:105 , THR G:126 , VAL G:153 , SER G:154 , SER G:155 , TYR G:168 , LYS G:172 , PRO G:198 , GLY G:199 , ILE G:201 , THR G:203 , PRO G:204 , MET G:205 , THR G:206 , HOH G:281 , HOH G:283 , HOH G:290 , HOH G:526 , HOH G:650
BINDING SITE FOR RESIDUE NAD G 279
08
AC8
SOFTWARE
GLY H:14 , ARG H:17 , MET H:19 , ASP H:38 , ARG H:39 , ALA H:51 , VAL H:75 , ASP H:76 , VAL H:77 , ASN H:103 , ALA H:104 , GLY H:105 , ILE H:106 , THR H:126 , VAL H:153 , SER H:154 , TYR H:168 , LYS H:172 , PRO H:198 , GLY H:199 , ASN H:200 , ILE H:201 , THR H:203 , PRO H:204 , MET H:205 , THR H:206 , HOH H:281 , HOH H:287 , HOH H:288 , HOH H:324 , HOH H:1217
BINDING SITE FOR RESIDUE NAD H 279
09
AC9
SOFTWARE
ASP H:55 , GLU H:58 , HOH H:708 , HOH H:765
BINDING SITE FOR RESIDUE CA H 280
10
BC1
SOFTWARE
GLU A:6 , HOH A:923 , HOH A:924 , HOH A:925 , HOH A:926 , HOH F:1110
BINDING SITE FOR RESIDUE CA A 280
11
BC2
SOFTWARE
GLY B:96 , ASP B:98 , HOH B:845 , HOH B:961 , HOH E:455 , HOH E:962
BINDING SITE FOR RESIDUE CA B 280
12
BC3
SOFTWARE
GLU B:6 , HOH B:964 , HOH B:966 , HOH E:823
BINDING SITE FOR RESIDUE CA B 281
13
BC4
SOFTWARE
HOH B:812 , HOH B:902 , HOH B:978 , HOH B:979 , GLU E:6 , HOH E:980
BINDING SITE FOR RESIDUE CA E 280
14
BC5
SOFTWARE
GLU F:6 , HOH F:1105 , HOH F:1106 , HOH F:1107 , HOH F:1108 , HOH F:1109
BINDING SITE FOR RESIDUE CA F 280
15
BC6
SOFTWARE
ASP D:55 , GLU D:58 , HOH D:1059
BINDING SITE FOR RESIDUE CA D 280
16
BC7
SOFTWARE
HOH A:302 , HOH A:955 , GLY F:96 , ASP F:98 , HOH F:722 , HOH F:1243
BINDING SITE FOR RESIDUE CA F 281
[
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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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.
SCOP Domains
(1, 8)
Info
All SCOP Domains
1a: SCOP_d3s55a_ (A:)
1b: SCOP_d3s55g_ (G:)
1c: SCOP_d3s55h_ (H:)
1d: SCOP_d3s55b_ (B:)
1e: SCOP_d3s55c_ (C:)
1f: SCOP_d3s55d_ (D:)
1g: SCOP_d3s55e_ (E:)
1h: SCOP_d3s55f_ (F:)
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Classes
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)
(
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(
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(
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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
:
automated matches
(447)
Protein domain
:
automated matches
(447)
Mycobacterium abscessus [TaxId: 561007]
(2)
1a
d3s55a_
A:
1b
d3s55g_
G:
1c
d3s55h_
H:
1d
d3s55b_
B:
1e
d3s55c_
C:
1f
d3s55d_
D:
1g
d3s55e_
E:
1h
d3s55f_
F:
[
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]
CATH Domains
(0, 0)
Info
all CATH domains
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Select:
Label:
Sorry, no Info available
[
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Pfam Domains
(1, 8)
Info
all PFAM domains
1a: PFAM_adh_short_3s55H01 (H:8-187)
1b: PFAM_adh_short_3s55H02 (H:8-187)
1c: PFAM_adh_short_3s55H03 (H:8-187)
1d: PFAM_adh_short_3s55H04 (H:8-187)
1e: PFAM_adh_short_3s55H05 (H:8-187)
1f: PFAM_adh_short_3s55H06 (H:8-187)
1g: PFAM_adh_short_3s55H07 (H:8-187)
1h: PFAM_adh_short_3s55H08 (H:8-187)
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Clans
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)
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(
)
Organisms
(
)
(
)
Clan
:
NADP_Rossmann
(1239)
Family
:
adh_short
(92)
Mycobacterium abscessus (strain ATCC 19977 / DSM 44196)
(2)
1a
adh_short-3s55H01
H:8-187
1b
adh_short-3s55H02
H:8-187
1c
adh_short-3s55H03
H:8-187
1d
adh_short-3s55H04
H:8-187
1e
adh_short-3s55H05
H:8-187
1f
adh_short-3s55H06
H:8-187
1g
adh_short-3s55H07
H:8-187
1h
adh_short-3s55H08
H:8-187
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Asym.Unit (672 KB)
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