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3S55
Biol. Unit 2
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
(1, 4)
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
-1
Ligand/Ion
CALCIUM ION
2
NAD
4
Ligand/Ion
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
[
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Sites
(11, 11)
Info
All Sites
01: AC5 (SOFTWARE)
02: AC6 (SOFTWARE)
03: AC7 (SOFTWARE)
04: AC8 (SOFTWARE)
05: AC9 (SOFTWARE)
06: BC1 (SOFTWARE)
07: BC2 (SOFTWARE)
08: BC3 (SOFTWARE)
09: BC4 (SOFTWARE)
10: BC5 (SOFTWARE)
11: BC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
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
02
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
03
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
04
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
05
AC9
SOFTWARE
ASP H:55 , GLU H:58 , HOH H:708 , HOH H:765
BINDING SITE FOR RESIDUE CA H 280
06
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
07
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
08
BC3
SOFTWARE
GLU B:6 , HOH B:964 , HOH B:966 , HOH E:823
BINDING SITE FOR RESIDUE CA B 281
09
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
10
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
11
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 only available for the asymmetric unit)
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PROSITE Patterns/Profiles
(, 0)
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Exons
(0, 0)
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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, 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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)
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)
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all CATH domains
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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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(
)
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(
)
(
)
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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Asymmetric Unit 1
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Asym.Unit (672 KB)
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