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5D3G
Asym. Unit
Info
Asym.Unit (759 KB)
Biol.Unit 1 (377 KB)
Biol.Unit 2 (376 KB)
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(1)
Title
:
STRUCTURE OF HIV-1 REVERSE TRANSCRIPTASE BOUND TO A NOVEL 38-MER HAIRPIN TEMPLATE-PRIMER DNA APTAMER
Authors
:
M. T. Miller, S. Tuske, K. Das, E. Arnold
Date
:
06 Aug 15 (Deposition) - 30 Sep 15 (Release) - 13 Jan 16 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.30
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,E (1x)
Biol. Unit 2: C,D,F (1x)
Keywords
:
Reverse Transcriptase, Hiv, Dna Aptamer, 2-O-Methylcytidine, P66, P51, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. T. Miller, S. Tuske, K. Das, J. J. Destefano, E. Arnold
Structure Of Hiv-1 Reverse Transcriptase Bound To A Novel 38-Mer Hairpin Template-Primer Dna Aptamer.
Protein Sci. V. 25 46 2016
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Hetero Components
(5, 21)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
1f: GLYCEROL (GOLf)
1g: GLYCEROL (GOLg)
1h: GLYCEROL (GOLh)
1i: GLYCEROL (GOLi)
1j: GLYCEROL (GOLj)
1k: GLYCEROL (GOLk)
2a: O2'-METHYLYCYTIDINE-5'-MONOPHOSPHA... (OMCa)
2b: O2'-METHYLYCYTIDINE-5'-MONOPHOSPHA... (OMCb)
2c: O2'-METHYLYCYTIDINE-5'-MONOPHOSPHA... (OMCc)
2d: O2'-METHYLYCYTIDINE-5'-MONOPHOSPHA... (OMCd)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
4a: SUCROSE (SUCa)
4b: SUCROSE (SUCb)
5a: THYMIDINE-5'-PHOSPHATE (TMPa)
5b: THYMIDINE-5'-PHOSPHATE (TMPb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
11
Ligand/Ion
GLYCEROL
2
OMC
4
Mod. Nucleotide
O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE
3
SO4
2
Ligand/Ion
SULFATE ION
4
SUC
2
Ligand/Ion
SUCROSE
5
TMP
2
Mod. Nucleotide
THYMIDINE-5'-PHOSPHATE
[
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Sites
(25, 25)
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: AD1 (SOFTWARE)
11: AD2 (SOFTWARE)
12: AD3 (SOFTWARE)
13: AD4 (SOFTWARE)
14: AD5 (SOFTWARE)
15: AD6 (SOFTWARE)
16: AD7 (SOFTWARE)
17: AD8 (SOFTWARE)
18: AD9 (SOFTWARE)
19: AE1 (SOFTWARE)
20: AE2 (SOFTWARE)
21: AE3 (SOFTWARE)
22: AE4 (SOFTWARE)
23: AE5 (SOFTWARE)
24: AE6 (SOFTWARE)
25: AE7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
LYS A:331 , GLY A:333 , GLN A:334
binding site for residue SO4 A 601
02
AC2
SOFTWARE
LEU A:429 , GLU A:430 , GLN A:507 , TYR A:532 , LEU A:533 , LYS B:259
binding site for residue GOL A 602
03
AC3
SOFTWARE
TRP B:24 , ARG B:78 , GLU B:79 , LYS B:82 , LYS B:395 , GLU B:399 , GLU B:413 , TRP B:414 , PHE B:416 , HOH B:2136 , HOH B:2146 , HOH B:2178
binding site for residue SUC B 2001
04
AC4
SOFTWARE
GLY B:316 , VAL B:317 , TYR B:318 , LYS B:323 , HOH B:2114 , HOH B:2135
binding site for residue GOL B 2002
05
AC5
SOFTWARE
TRP B:24 , GLU B:399 , TRP B:402 , HOH B:2136 , HOH B:2140
binding site for residue GOL B 2003
06
AC6
SOFTWARE
LEU A:92 , VAL A:381 , GLN B:23 , TRP B:24 , PRO B:25 , PRO B:133 , ASN B:137 , HOH B:2139 , HOH B:2141 , HOH B:2176 , HOH B:2192
binding site for residue GOL B 2004
07
AC7
SOFTWARE
GLN A:407 , ALA A:408 , THR A:409 , ILE B:393 , GLN B:394 , THR B:397 , HOH B:2106
binding site for residue GOL B 2005
08
AC8
SOFTWARE
LYS B:64 , GLU B:404 , TRP B:406 , GLN B:407 , HOH B:2132 , HOH B:2133
binding site for residue GOL B 2006
09
AC9
SOFTWARE
LYS C:331 , GLN C:334 , HOH C:733
binding site for residue SO4 C 601
10
AD1
SOFTWARE
LYS C:366 , THR C:369 , GLU C:370 , ALA C:408 , THR C:409 , HOH C:703 , HOH C:749 , GLN D:394 , THR D:397
binding site for residue GOL C 602
11
AD2
SOFTWARE
ASP D:76 , ARG D:78 , GLU D:79 , LYS D:82 , LYS D:395 , GLU D:399 , GLU D:413 , TRP D:414 , PHE D:416 , GOL D:504 , HOH D:653
binding site for residue SUC D 501
12
AD3
SOFTWARE
TRP D:266 , GLU D:328 , GLN D:340 , TYR D:342 , PHE D:346 , ASN D:348
binding site for residue GOL D 502
13
AD4
SOFTWARE
LEU C:92 , VAL C:381 , GLN D:23 , PRO D:25 , ASN D:137 , HOH D:613 , HOH D:614 , HOH D:631 , HOH D:643
binding site for residue GOL D 503
14
AD5
SOFTWARE
TRP D:24 , GLU D:399 , TRP D:402 , SUC D:501 , HOH D:611 , HOH D:671 , HOH D:674
binding site for residue GOL D 504
15
AD6
SOFTWARE
DC F:5 , DG F:30
binding site for residue GOL F 101
16
AD7
SOFTWARE
ARG A:78 , ASN A:81 , GLU A:89 , GLY A:152 , LYS A:154 , PRO A:157 , MET A:184 , DA E:0 , DC E:3 , DG E:32 , DG E:33
binding site for Di-nucleotide DC E 1 and OMC E 2
17
AD8
SOFTWARE
GLU A:89 , GLN A:91 , ILE A:94 , LYS A:154 , PRO A:157 , TYR A:183 , MET A:184 , DC E:1 , OMC E:4 , DG E:31 , DG E:32 , DG E:33
binding site for Di-nucleotide OMC E 2 and DC E 3
18
AD9
SOFTWARE
GLU A:89 , GLN A:91 , LEU A:92 , ILE A:94 , TYR A:183 , LYS B:22 , OMC E:2 , DC E:5 , DG E:30 , DG E:31 , DG E:32 , HOH E:106
binding site for Di-nucleotide DC E 3 and OMC E 4
19
AE1
SOFTWARE
LEU A:92 , ILE A:94 , LYS B:22 , DC E:3 , DC E:6 , DG E:29 , DG E:30 , DG E:31 , HOH E:106
binding site for Di-nucleotide OMC E 4 and DC E 5
20
AE2
SOFTWARE
TRP A:24 , PHE A:61 , LEU A:74 , VAL A:75 , ASP A:76 , ARG A:78 , GLN A:151 , GLY A:152 , DC E:1 , HOH E:111
binding site for Di-nucleotide TMP E -1 and DA E 0
21
AE3
SOFTWARE
ARG C:78 , ASN C:81 , GLU C:89 , GLY C:152 , LYS C:154 , PRO C:157 , MET C:184 , DA F:0 , DC F:3 , DG F:32 , DG F:33
binding site for Di-nucleotide DC F 1 and OMC F 2
22
AE4
SOFTWARE
GLU C:89 , GLN C:91 , ILE C:94 , LYS C:154 , PRO C:157 , TYR C:183 , MET C:184 , DC F:1 , OMC F:4 , DG F:31 , DG F:32 , DG F:33
binding site for Di-nucleotide OMC F 2 and DC F 3
23
AE5
SOFTWARE
GLU C:89 , GLN C:91 , LEU C:92 , ILE C:94 , TYR C:183 , HOH C:767 , LYS D:22 , OMC F:2 , DC F:5 , DG F:30 , DG F:31 , DG F:32
binding site for Di-nucleotide DC F 3 and OMC F 4
24
AE6
SOFTWARE
LEU C:92 , ILE C:94 , HOH C:767 , LYS D:22 , DC F:3 , DC F:6 , DG F:29 , DG F:30 , DG F:31 , GOL F:101
binding site for Di-nucleotide OMC F 4 and DC F 5
25
AE7
SOFTWARE
TRP C:24 , PHE C:61 , LEU C:74 , VAL C:75 , ASP C:76 , ARG C:78 , GLN C:151 , GLY C:152 , DC F:1 , HOH F:206
binding site for Di-nucleotide TMP F -1 and DA F 0
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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
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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
(0, 0)
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CATH Domains
(0, 0)
Info
all CATH domains
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Pfam Domains
(0, 0)
Info
all PFAM domains
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Chain E
Chain F
Asymmetric Unit 1
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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Asym.Unit (759 KB)
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Biol.Unit 1 (377 KB)
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Biol.Unit 2 (376 KB)
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