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3NBF
Asym. Unit
Info
Asym.Unit (282 KB)
Biol.Unit 1 (140 KB)
Biol.Unit 2 (139 KB)
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(1)
Title
:
Q28E MUTANT OF HERA HELICASE N-TERMINAL DOMAIN BOUND TO 8-OXO-ADP
Authors
:
M. G. Rudolph, D. Klostermeier
Date
:
03 Jun 10 (Deposition) - 23 Mar 11 (Release) - 23 Mar 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.90
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B (1x)
Biol. Unit 2: C,D (1x)
Keywords
:
Rna Helicase, Ribosome Biogenesis, Atp Hydrolysis, Base Specificity, Thermostability, Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
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Reference
:
J. Strohmeier, I. Hertel, U. Diederichsen, M. G. Rudolph, D. Klostermeier
Changing Nucleotide Specificity Of The Dead-Box Helicase Hera Abrogates Communication Between The Q-Motif And The P-Loop.
Biol. Chem. V. 392 357 2011
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Hetero Components
(2, 9)
Info
All Hetero Components
1a: [(2R,3S,4R,5R)-5-(6-AZANYL-8-OXO-7... (8ODa)
1b: [(2R,3S,4R,5R)-5-(6-AZANYL-8-OXO-7... (8ODb)
1c: [(2R,3S,4R,5R)-5-(6-AZANYL-8-OXO-7... (8ODc)
1d: [(2R,3S,4R,5R)-5-(6-AZANYL-8-OXO-7... (8ODd)
1e: [(2R,3S,4R,5R)-5-(6-AZANYL-8-OXO-7... (8ODe)
1f: [(2R,3S,4R,5R)-5-(6-AZANYL-8-OXO-7... (8ODf)
2a: [(2R,3S,4R,5R)-5-(6-AZANYL-8-OXO-7... (8OPa)
2b: [(2R,3S,4R,5R)-5-(6-AZANYL-8-OXO-7... (8OPb)
2c: [(2R,3S,4R,5R)-5-(6-AZANYL-8-OXO-7... (8OPc)
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No.
Name
Count
Type
Full Name
1
8OD
6
Ligand/Ion
[(2R,3S,4R,5R)-5-(6-AZANYL-8-OXO-7H-PURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL PHOSPHONO HYDROGENPHOSPHATE
2
8OP
3
Ligand/Ion
[(2R,3S,4R,5R)-5-(6-AZANYL-8-OXO-7H-PURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL DIHYDROGEN PHOSPHATE
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Sites
(9, 9)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
4: AC4 (SOFTWARE)
5: AC5 (SOFTWARE)
6: AC6 (SOFTWARE)
7: AC7 (SOFTWARE)
8: AC8 (SOFTWARE)
9: AC9 (SOFTWARE)
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No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
PHE A:3 , LEU A:21 , THR A:23 , PRO A:24 , GLU A:28 , THR A:49 , GLY A:50 , LYS A:51 , THR A:52 , GLU A:91 , HOH A:212 , HOH A:272 , HOH A:282 , THR B:108 , GLY B:109 , LYS B:112 , ARG C:191
BINDING SITE FOR RESIDUE 8OD A 500
2
AC2
SOFTWARE
PRO A:80 , THR A:81 , ARG A:82 , GLU A:83 , GLY A:106 , THR A:127 , GLY A:129 , ARG A:130 , PHE A:161 , HOH A:235 , 8OD B:600
BINDING SITE FOR RESIDUE 8OD A 600
3
AC3
SOFTWARE
THR A:108 , LEU B:21 , THR B:23 , PRO B:24 , THR B:25 , GLU B:28 , THR B:47 , GLY B:48 , THR B:49 , GLY B:50 , LYS B:51 , THR B:52 , GLU B:91 , HOH B:228 , HOH B:237 , HOH B:248 , HOH B:249
BINDING SITE FOR RESIDUE 8OD B 500
4
AC4
SOFTWARE
ARG A:82 , 8OD A:600 , THR B:81 , ARG B:82 , GLU B:83 , GLY B:106 , THR B:127 , GLY B:129 , ARG B:130 , PHE B:161 , HOH B:226
BINDING SITE FOR RESIDUE 8OD B 600
5
AC5
SOFTWARE
LYS A:190 , GLU A:194 , GLN B:44 , ASN B:204 , ILE B:206 , HOH B:208 , TYR C:110 , GLY C:111 , LYS C:114 , GLN C:137 , HOH C:211 , HOH C:226 , HOH C:230 , HOH C:244 , HOH C:277
BINDING SITE FOR RESIDUE 8OP C 501
6
AC6
SOFTWARE
LEU C:21 , THR C:23 , THR C:25 , GLU C:28 , GLY C:48 , THR C:49 , GLY C:50 , LYS C:51 , THR C:52 , LEU C:53 , GLU C:91 , LYS D:112
BINDING SITE FOR RESIDUE 8OP C 500
7
AC7
SOFTWARE
ARG A:195 , HOH A:226 , PRO C:80 , THR C:81 , ARG C:82 , GLU C:83 , GLY C:106 , THR C:127 , GLY C:129 , ARG C:130 , MET C:159 , PHE C:161 , HOH C:210 , HOH C:214 , HOH C:254 , HOH C:255 , ARG D:82 , 8OD D:600
BINDING SITE FOR RESIDUE 8OD C 600
8
AC8
SOFTWARE
PHE D:3 , LEU D:21 , THR D:23 , PRO D:24 , THR D:25 , GLU D:28 , GLY D:50 , LYS D:51 , THR D:52 , GLU D:91
BINDING SITE FOR RESIDUE 8OP D 500
9
AC9
SOFTWARE
ARG C:82 , 8OD C:600 , THR D:81 , ARG D:82 , GLU D:83 , GLY D:106 , THR D:127 , GLY D:129 , ARG D:130 , MET D:159 , PHE D:161 , HOH D:217 , HOH D:240 , HOH D:245 , HOH D:248
BINDING SITE FOR RESIDUE 8OD D 600
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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Exons
(0, 0)
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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, 4)
Info
All SCOP Domains
1a: SCOP_d3nbfa_ (A:)
1b: SCOP_d3nbfb_ (B:)
1c: SCOP_d3nbfc_ (C:)
1d: SCOP_d3nbfd_ (D:)
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Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Superfamily
:
P-loop containing nucleoside triphosphate hydrolases
(2083)
Family
:
automated matches
(303)
Protein domain
:
automated matches
(303)
Thermus thermophilus [TaxId: 262724]
(12)
1a
d3nbfa_
A:
1b
d3nbfb_
B:
1c
d3nbfc_
C:
1d
d3nbfd_
D:
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CATH Domains
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all CATH domains
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_DEAD_3nbfD01 (D:25-192)
1b: PFAM_DEAD_3nbfD02 (D:25-192)
1c: PFAM_DEAD_3nbfD03 (D:25-192)
1d: PFAM_DEAD_3nbfD04 (D:25-192)
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Clan
:
P-loop_NTPase
(1112)
Family
:
DEAD
(41)
Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)
(5)
1a
DEAD-3nbfD01
D:25-192
1b
DEAD-3nbfD02
D:25-192
1c
DEAD-3nbfD03
D:25-192
1d
DEAD-3nbfD04
D:25-192
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (282 KB)
Header - Asym.Unit
Biol.Unit 1 (140 KB)
Header - Biol.Unit 1
Biol.Unit 2 (139 KB)
Header - Biol.Unit 2
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