Structure of PDB 4v8z Chain CV Binding Site BS02

Receptor Information

>4v8z Chain CV (length=568) Species: 187420,559292

KDLRSPICCILGHVDTGKTKLLDKIRQTNVQGGEAGGITQQIGATYFPID
AIKAKTKVMAEYEKQTFDVPGLLVIDTPGHESFSNLRSRGSSLCNIAILV
IDIMHGLEQQTIESIKLLRDRKAPFVVALNKIDRLYDWKAIPNNSFRDSF
AKQSRAVQEEFQSRYSKIQLELAEQGLNSELYFQNKNMSKYVSIVPTSAV
TGEGVPDLLWLLLELTQKRMSKQLMYLSHVEATILEVKVVEGFGTTIDVI
LSNGYLREGDRIVLCGMNGPIVTNIRALLTPQPLRELRLKSEYVHHKEVK
AALGVKIAANDLEKAVSGSRLLVVGPEDDEDELMDDVMDAGVVVKADTLG
SLEAVVKILRDMYVPIKVADIGDVSRRDVVNAGIALQEDRVYGAIIAFNV
KVIPSAAQELKNSDIKLFQGNVIYRLMEEYEEWVRGIEEEKKKKWMEAII
KPASIRLIPKLVFRQSKPAIGGVEVLTGVIRQGYPLMNDDGETVGTVESM
QDKGENLKSASRGQKVAMAIKDAVYGKTIHEGDTLYVDIPENHYHILLTD
EELDLMDKIAEIKRKKNP

Ligand information

>4v8z Chain B5 (length=3147)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacauggcugggccag
caucaguuuugguggcaggauaaauccauaggaauguagcuugccucggu
aaguauuauagccugugggaauacugccagcugggacugaggacugcgac
guaagucaaggaugcuggcauaaugguuauaugccgcccgucuugaaaca
cggaccaaggagucuaacgucuaugcgaguguuuggguguaaaacccaua
cgcguaaugaaagugaacguagguuggggccucgcaagaggugcacaauc
gaccgauccugaugucuucggauggauuugaguaagagcauagcuguugg
gacccgaaagauggugaacuaugccugaauagggugaagccagaggaaac
ucugguggaggcucguagcgguucugacgugcaaaucgaucgucgaauuu
ggguauaggggcgaaagacuaaucgaaccaucuaguagcugguuccugcc
gaaguuucccucaggauagcagaagcucguaucaguuuuaugagguaaag
cgaaugauuagagguuccggggucgaaaugaccuugaccuauucucaaac
uuuaaauauguaagaaguccuuguuacuuaauugaacguggacauuugaa
ugaagagcuuuuagugggccauuuuugguaagcagaacuggcgaugcggg
augaaccgaacguagaguuaaggugccggaauacacgcucaucagacacc
acaaaagguguuaguucaucuaagccggacgguggccauggaagucggaa
uccgcuaaggaguguguaacaacucaccggccgaaugaacuagcccugaa
aauggauggcgcucaagcguguuaccuauacucuaccgucaggguugaua
ugaugcccugacgaguaggcaggcguggaggucagugacgaagccuagac
cguaaggucgggucgaacggccucuagugcagaucuuggugguaguagca
aauauucaaaugagaacuuugaagacugaaguggggaaagguuccacguc
aacagcaguuggacguggguuagucgauccuaagagauggggaagcuccg
uuucaaaggccugauuuuaugcaggccaccaucgaaagggaauccgguua
agauuccggaaccuggauauggauucuucacgguaacguaacugaaugug
gagacgucggcgcgagcccugggaggaguuaucuuuucuucuuaacagcu
uaucaccccggaauugguuuauccggagauggggucuuauggcuggaaga
ggccagcaccuuugcuggcuccggugcgcuugugacggcccgugaaaauc
cacaggaaggaauaguuuucaugccaggucguacugauaaccgcagcagg
ucuccaaggugaacagccucuaguugauagaauaauguagauaagggaag
ucggcaaaauagauccguaacuucgggauaaggauuggcucuaagggucg
gacgaucaacuuagaacugguacggacaaggggaaucugacugucuaauu
aaaacauagcauugcgauggucagaaagugauguugacgcaaugugauuu
cugcccagugcucugaaugucaaagugaagaaauucaaccaagcgcgggu
aaacggcgggaguaacuaugacucucuuaagguagccaaaugccucguca
ucuaauuagugacgcgcaugaauggauuaacgagauucccacugucccua
ucuacuaucuagcgaaaccacagccaagggaacgggcuuggcagaaucag
cggggaaagaagacccuguugagcuugacucuaguuugacauugugaaga
gacguuucuuuacuuauucaaugaagcggagcuggaauucauuuuccacg
uucuagcauucaaggucccauucggggcugauccggguugaagacauugu
cagguggggaguuuggcuggggcggcacaucuguuaaacgauaacgcaga
uguccuaaggggggcucauggagaacagaaaucuccaguagaacaaaagg
guaaaagcccccuugauuuugauuuucagugugaauacaaaccaugaaag
uguggccuaucgauccuuuagucccucggaauuugaggcuagaggugcca
gaaaaguuaccacagggauaacuggcuuguggcagucaagcguucauagc
gacauugcuuuuugauucuucgaugucggcucuuccuaucauaccgaagc
agaauucgguaagcguuggauuguucacccacuaauagggaacgugagcu
ggguuuagaccgucgugagacagguuaguuuuacccuacugaugaauguu
accgcaauaguaauugaacuuaguacgagaggaacaguucauucggauaa
uugguuuuugcggcugucugaucaggcauugccgcgaagcuaccauccgc
uggauuauggcugaacgccucuaagucagaauccaugcuagaacgcggug
auuucuuugcuccacacaauauagauggauacgaauaaggcguccuugug
gcgucgcugaaccauagcaggcuagcaacggugcacuuggcggaaaggcc
uugggugcuugcuggcgaauugcaaugucauuuugcguggggauaaauca
uuuguauacgacuuagauguacaacgggguauuguaagcaguagaguagc
cuuguuguuacgaucugcugagauuaagccuuuguugucugauuugu

........................<<<<<<.....<......>......>
>>>>.>.........<<....>>..<<<<<......<<.....>>.....
>>>>>..[[[..<<.......<<.<<<<<<...>>>>>>.>>.......>
>....<<<<<<.<<<<<..<<<<<<<<<<<<<<<....<<<<......>>
>>.(.......<<<......)>>>..>.>>>>>>>>..>>>>>>......
>>>>>>>>>>>........<<<<<<<........>>>>>>>.....((((
(..<<<<<<)))))..]]]...............................
...<<....>>...............<<<<....>>>>............
......................<<<<<.<<<<<<...........<<<<<
<<.<<<<<<<<<<<<<<<.....<<<<<<<<<......<<<<<<....>>
>>>>.......>>>>>>>.>.>.>>>>>.>>>>>>>>>>........<<<
....>>>.....>>>>>>>....>>>>>>.>>>>>..<<<<........>
>>><<<<<<....<<<<<<.<<<<<<..<<<...<<<<.....>>>>...
>>>...<<....>>.......<<<<<..<<<<<....>>>>>...>>>>>
.<<<<<<<<...<<....>>...>>>.>>>.>>....>>>>>>.>>>>>>
..<<.<..<<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>
>>>>>>.....>>>...<<<..<<.<<........>>>>.>>>....>>>
>>>>>>...<<.......>>......>>>>>>...>..>.>>..<<<<<<
....<.<<<....>>>.><<<<<<<<<<...<<<.<<<<<<<.....<<<
....<<<....<<<<<..<<<<<<.....>>>>>>>>>>>....>>>..>
.>>.....>>>>>...<<<<.<<<<.<......>>>>>.>>>>.....>>
>>>.>>>>>>>>.>>..<<<<.<<<<<.....>>>>>.>>>>....<<<.
.....>>>...<<<<<<<..<<<<(((.....<<<<<<.....<<.....
.....<<<.<<<<<<<<<<..........<<<...<<.........>>..
.>>>.........<<......>>...........>>>>>>>>>>>>>...
.......))).>>...>>>>>>.>>>>..>>>>>>><<<<<<<<<.....
....>>>>>>>>>....>>>>>><.<<<<<<<<.<<......<<<<.<<<
<....>>>>>>>>...>>>>>>>>>>..>.....>>>>>><<.....<<.
....<<<<<<.......>>>>>><<<<<....<<<<<.<<...<<<<<<.
..<<.....>>.>>>>>>....((<<<<<<...<<....<<<....>>>.
.......<<<<<<<.....>.>>>>>>....>>....>>...<<<<<...
.....>>>>>))<<<<.<<<<<<<.....<<<....>>>.......<<<<
<<...<<<<.<<<<<<<.<<<<<<<<<<..{{{..>>>>>><...<<<<<
....<<<<<<....<<<.....>>>....>>>>>>.....>>>>>....>
<<<<<<<......>>>>>>>>>>>...>>>>>>>.>>>>.........>>
>>>>..........>>>..>>>>>>>>>>>>..>>.....<<......>>
>>>>>.<<<<.....>>>>.>>>>>..<<<<.....<<<<<<<.<<....
...........<<<<<...............>>>>><<.<<<<<<<<<<<
..>>>>>..>>>>>>.>>............<<<<<<<<<..<<<......
...>>>..<<<<<<<....<<<<.....>>>>......>>>>>>>.<.<<
..<<<..<<<<<<.<..<<<.....<<<<....>>>>.....>>>>>>>>
..>>>>><<<<<<.......>>>>>>........<...........<<<<
<.......>>>>>.....>.....>>.>..>>.>>>>>>>.....>>.>>
>>>>>..>>>>>>....>>....<<<<<........>>>>>....[[[[[
..{{{.{{......[[[[.{{[[[[..<<<<<.<<<<<<<<..<<<<<<.
.......>>>>>>...<<<<<.....<<<<..<<<<<......>>>>>..
.............<<<<<......>>>>>..>>>>..>>>>>.....>>>
>>>>>..>>>>>...<<<.....>>>..<<<<<<...........>>>>>
>..<<...<<<<<<<...<<<<<<.......>>>>>>.....<<...(((
>>....>>>>>>>...<<<.<<<<<.......>>>>.>>>>.<<<....>
>>.>>))).......((((((..((((.>>>>>>))))))))))......
....]]]]..}}]]]].......<<.<...<<<<<<...<<.......>>
...>>>>>>....>.>.>.......<<<<<.<<<<<<..<.<<<<<<<..
....>>>>>>>...>.<<<.........>>>.....>>>>>..>...>>>
.>>....<<<<<<<....>>>.>>>>....}}..}}}.]]]]]....<<<
<<<<<..<<<<...<<<<<<...............>>>>>>..<<<<<..
.<<<<<...<<<<<<<<<<}}}.>>>>>..>>>>>..>>>>>..>>>>>.
<<<<...<<<<<...........>>>>>...>>>>.>>>>....>>>>>>
>>.......<<<<<<.<<<.<<....<<..........<<<<<<.....>
>>>>>......>>.......<<<<<<...<<<<<.<..<<<......>>>
..>.>>>>>.>>>>>>.............>>.>>>.>>>>>>..<<<<<.
<.............>.....<<<<<<<<<.<<<....<<<<....<<<<<
......>>>>>...>>>>...>>>....>>>>.>>>>>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4v8z Molecular architecture of a eukaryotic translational initiation complex.
• Resolution: 6.6 Å
• Binding residue (original residue number in PDB): V14 D15 E81 F83 Q109 R134 V433 I434 Y435 R436 R475 Q476 S477 K478 P479 A480 I481 Q525 K526
• Binding residue (residue number reindexed from 1): V14 D15 E81 F83 Q109 R134 V422 I423 Y424 R425 R464 Q465 S466 K467 P468 A469 I470 Q514 K515

Enzymatic activity

• Enzyme Commision number:
  3.6.5.3: protein-synthesizing GTPase.

Gene Ontology

Molecular Function

• GO:0003743 translation initiation factor activity
• GO:0003924 GTPase activity
• GO:0005525 GTP binding

Biological Process

• GO:0006413 translational initiation

External links

• PDB: RCSB:4v8z, PDBe:4v8z, PDBj:4v8z
• PDBsum: 4v8z
• PubMed: 24200810
• UniProt: O26359|IF2P_METTH Probable translation initiation factor IF-2 (Gene Name=infB);
  P39730|IF2P_YEAST Eukaryotic translation initiation factor 5B (Gene Name=FUN12)