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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

5JB3

Cryo-EM structure of a full archaeal ribosomal translation initiation complex in the P-REMOTE conformation

Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1216S ribosomal RNApolymer1519493107.01GenBank (5457433)Pyrococcus abyssi GE5
2M30S ribosomal protein S11polymer13714757.01UniProt (P62010)
Pfam (PF00411)
In PDB		Pyrococcus abyssi GE5
3N30S ribosomal protein S12polymer14716477.61UniProt (P61994)
Pfam (PF00164)
In PDB		Pyrococcus abyssi GE5
4Q30S ribosomal protein S15polymer15818640.01UniProt (Q9V2K9)
UniProt (by SIFTS) (Q8TZD9)
Pfam (PF08069)
Pfam (PF00312)
In PDB		Pyrococcus abyssi GE5
5R30S ribosomal protein S17Ppolymer11313296.51UniProt (Q9V1U5)
UniProt (by SIFTS) (Q8U008)
Pfam (PF00366)
In PDB		Pyrococcus abyssi GE5
6A30S ribosomal protein S3Aepolymer19822984.11UniProt (Q9V2K7)
UniProt (by SIFTS) (Q8TZE1)
Pfam (PF01015)
In PDB		Pyrococcus abyssi GE5Ribosomal protein S1e
7B30S ribosomal protein S2polymer20223039.91UniProt (Q9V191)
UniProt (by SIFTS) (Q8U0F0)
Pfam (PF00318)
In PDB		Pyrococcus abyssi GE5
8V30S ribosomal protein S24epolymer9911698.61UniProt (Q9UY20)
UniProt (by SIFTS) (Q8U442)
Pfam (PF01282)
In PDB		Pyrococcus abyssi GE5
9W30S ribosomal protein S27epolymer636888.41UniProt (Q9UXZ3)
UniProt (by SIFTS) (Q8U474)
Pfam (PF01667)
In PDB		Pyrococcus abyssi GE5
10Z30S ribosomal protein S3polymer21023464.41UniProt (Q9V1U1)
UniProt (by SIFTS) (Q8U004)
Pfam (PF07650)
Pfam (PF00189)
In PDB		Pyrococcus abyssi GE5
11D30S ribosomal protein S4polymer18021381.91UniProt (P61992)
Pfam (PF00163)
Pfam (PF01479)
In PDB		Pyrococcus abyssi GE5
12E30S ribosomal protein S4epolymer24328197.01UniProt (Q9V1U8)
UniProt (by SIFTS) (Q8U011)
Pfam (PF00900)
Pfam (PF08071)
Pfam (PF01479)
In PDB		Pyrococcus abyssi GE5
13F30S ribosomal protein S5polymer23626590.91UniProt (Q9V1V5)
UniProt (by SIFTS) (Q8U017)
Pfam (PF00333)
Pfam (PF03719)
In PDB		Pyrococcus abyssi GE5
14G30S ribosomal protein S6epolymer12514002.31UniProt (Q9UYS3)
UniProt (by SIFTS) (Q8U3H8)
Pfam (PF01092)
In PDB		Pyrococcus abyssi GE5
15I30S ribosomal protein S8polymer13014684.21UniProt (Q9V1V0)
UniProt (by SIFTS) (Q8U014)
Pfam (PF00410)
In PDB		Pyrococcus abyssi GE5
16J30S ribosomal protein S8epolymer12714293.71UniProt (Q9UZL4)
UniProt (by SIFTS) (Q8U1Y5)
Pfam (PF01201)
In PDB		Pyrococcus abyssi GE5
17C30S ribosomal protein SXpolymer574869.01Pyrococcus abyssi GE5
18350S ribosomal protein L7Aepolymer12313414.71UniProt (P62008)
Pfam (PF01248)
UniProt (by SIFTS) (Q8U160)
In PDB		Pyrococcus abyssi GE5Ribosomal protein L8e
19L30S ribosomal protein S10polymer10211769.71UniProt (Q9V0V6)
UniProt (by SIFTS) (P61885)
Pfam (PF00338)
In PDB		Pyrococcus abyssi GE5
20O30S ribosomal protein S13polymer14816948.91UniProt (Q9V1A0)
UniProt (by SIFTS) (Q8U0E2)
Pfam (PF00416)
In PDB		Pyrococcus abyssi GE5
21P30S ribosomal protein S14 type Zpolymer566634.01UniProt (P62012)
UniProt (by SIFTS) (Q8U013)
Pfam (PF00253)
In PDB		Pyrococcus abyssi GE5
22S30S ribosomal protein S17epolymer677942.51UniProt (Q9V0G0)
UniProt (by SIFTS) (Q8U0U1)
Pfam (PF00833)
In PDB		Pyrococcus abyssi GE5
23T30S ribosomal protein S19polymer13215357.41UniProt (Q9V1T9)
UniProt (by SIFTS) (Q8U002)
Pfam (PF00203)
In PDB		Pyrococcus abyssi GE5
24U30S ribosomal protein S19epolymer15017394.21UniProt (Q9V0G8)
Pfam (PF01090)
In PDB		Pyrococcus abyssi GE5
25X30S ribosomal protein S28epolymer718116.31UniProt (P61029)
UniProt (by SIFTS) (Q8U159)
Pfam (PF01200)
In PDB		Pyrococcus abyssi GE5
26Y30S ribosomal protein S27aepolymer505865.01UniProt (P61238)
UniProt (by SIFTS) (Q8U443)
Pfam (PF01599)
In PDB		Pyrococcus abyssi GE5
27H30S ribosomal protein S7polymer21524701.81UniProt (Q9V109)
UniProt (by SIFTS) (Q8U0M8)
Pfam (PF00177)
In PDB		Pyrococcus abyssi GE5
28K30S ribosomal protein S9polymer13515317.91UniProt (Q9V195)
UniProt (by SIFTS) (Q8U0E7)
Pfam (PF00380)
In PDB		Pyrococcus abyssi GE5
29030S ribosomal protein eL41polymer223050.81UniProt (by SIFTS) (Q8U232)
In PDB		Pyrococcus abyssi GE5
304initiator Met-tRNA fMet from E. coli (A1U72 variant)polymer7624488.61Escherichia coli
315mRNApolymer268394.01Pyrococcus abyssi GE5
321Protein translation factor SUI1 homologpolymer10211621.81UniProt (by SIFTS) (Q57902)
Pfam (PF01253)
In PDB		Pyrococcus abyssi GE5
336Translation initiation factor 1Apolymer11313078.31UniProt (Q9V138)
Pfam (PF01176)
In PDB		Pyrococcus abyssi GE5aIF-1A
347Translation initiation factor 2 subunit gammapolymer41545849.21UniProt (by SIFTS) (Q980A5)
Pfam (PF00009)
Pfam (PF09173)
In PDB		Pyrococcus abyssi GE5aIF2-gamma,eIF-2-gamma
358Translation initiation factor 2 subunit betapolymer13915942.71UniProt (by SIFTS) (Q97W59)
Pfam (PF01873)
In PDB		Pyrococcus abyssi GE5aIF2-beta,eIF-2-beta
369Translation initiation factor 2 subunit alphapolymer26630432.41UniProt (by SIFTS) (Q97Z79)
Pfam (PF00575)
Pfam (PF07541)
In PDB		Pyrococcus abyssi GE5aIF2-alpha,eIF-2-alpha
377METHIONINEnon-polymer149.21Chemie (MET)
387MAGNESIUM IONnon-polymer24.31Chemie (MG)
397PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTERnon-polymer522.21Chemie (GNP)
408ZINC IONnon-polymer65.41Chemie (ZN)
Sequence modifications
2: -11 - 1505 (GenBank: 5457433)
PDBExternal DatabaseDetails
U -3Unk 205048conflict
C 227G 205279conflict
G 229C 205281conflict
C 715G 205767conflict
G 718C 205770conflict
A 1216U 206269conflict
C 1217G 206270conflict
U 1224C 206277conflict
A 1234G 206287conflict
G 1238U 206291conflict
U 1316C 206369conflict
A 1383G 206436conflict
U 1385C 206438conflict
C 1387U 206440conflict
G 1388A 206441conflict
U 1398C 206451conflict
A 1417G 206470conflict
C 1427U 206480conflict
G 1428A 206481conflict
A 1463G 206516conflict
M: 1 - 137 (UniProt: P62010)
PDBExternal DatabaseDetails
Phe 23Tyr 23conflict
Q: 1 - 158 (UniProt: Q9V2K9)
PDBExternal DatabaseDetails
Val 26Leu 26conflict
Glu 32Asp 32conflict
Ser 62Thr 62conflict
Lys 67Arg 67conflict
Asn 75Lys 75conflict
Arg 100Lys 100conflict
Asn 145Asp 145conflict
Thr 152Gln 152conflict
R: 1 - 113 (UniProt: Q9V1U5)
PDBExternal DatabaseDetails
Met 2Val 2conflict
Val 9Ile 9conflict
Asn 26His 26conflict
Phe 55His 55conflict
Asn 58Lys 58conflict
Lys 69Arg 69conflict
Lys 85Arg 85conflict
A: 1 - 198 (UniProt: Q9V2K7)
PDBExternal DatabaseDetails
Met 1Ala 2conflict
Ala 3Lys 4conflict
Lys 4Arg 5conflict
Ala 6Val 7conflict
Thr 7Ser 8conflict
Thr 8Ala 9conflict
Thr 9Ala 10conflict
Arg 10Lys 11conflict
Ile 20Val 21conflict
Val 55Ile 56conflict
Thr 60Leu 61conflict
Ser 62Gly 63conflict
Lys 99Arg 100conflict
Ala 123Val 124conflict
Met 126Ala 127conflict
Ser 161Ala 162conflict
Arg 181Lys 182conflict
Glu 192Gly 193conflict
Gln 195Glu 196conflict
Ile 197Ala 198conflict
B: 1 - 202 (UniProt: Q9V191)
PDBExternal DatabaseDetails
Lys 61Arg 61conflict
Glu 63Asp 63conflict
Leu 115Ile 115conflict
Val 117Ile 117conflict
Arg 128Lys 128conflict
Val 131Ile 131conflict
Gln 183Ser 183conflict
Asp 187Glu 187conflict
V: 1 - 99 (UniProt: Q9UY20)
PDBExternal DatabaseDetails
Arg 4Lys 4conflict
Lys 6Thr 6conflict
Ile 8Val 8conflict
Ile 64Lys 64conflict
Ala 71Tyr 71conflict
Asp 73Tyr 73conflict
Ser 74Asp 74conflict
Glu 76Asp 76conflict
Leu 92Ile 92conflict
W: 1 - 63 (UniProt: Q9UXZ3)
PDBExternal DatabaseDetails
Met 1Leu 3conflict
Ala 2Pro 4conflict
Lys 3Arg 5conflict
Pro 4Asn 6conflict
Ile 5Val 7conflict
Lys 34Arg 36conflict
Leu 38Asn 40conflict
Ile 39Val 41conflict
Val 54Ile 56conflict
Lys 55Arg 57conflict
Z: 1 - 210 (UniProt: Q9V1U1)
PDBExternal DatabaseDetails
Arg 13Lys 13conflict
Lys 71Arg 71conflict
Glu 81Asp 81conflict
Glu 83Gln 83conflict
Leu 99Ile 99conflict
Leu 117Met 117conflict
Asn 122Ser 122conflict
Leu 132Ile 132conflict
Ile 144Val 144conflict
Gly 186Asp 186conflict
Val 205Ser 205conflict
E: 1 - 243 (UniProt: Q9V1U8)
PDBExternal DatabaseDetails
Asp 118Glu 118conflict
Phe 121Asn 121conflict
Ile 133Val 133conflict
Arg 137Lys 137conflict
Val 138Ile 138conflict
Ile 149Leu 149conflict
Val 150Ile 150conflict
Ser 151Pro 151conflict
Ile 152Leu 152conflict
Ala 153Ser 153conflict
Arg 204Lys 204conflict
Thr 235Arg 235conflict
Lys 239Arg 239conflict
F: 1 - 236 (UniProt: Q9V1V5)
PDBExternal DatabaseDetails
Glu 17Gln 17conflict
Met 25Leu 25conflict
Arg 40Lys 40conflict
Val 65Ile 65conflict
Lys 104Arg 104conflict
Ala 144Thr 144conflict
Arg 155Lys 155conflict
Val 180Ile 180conflict
Phe 188Leu 188conflict
Arg 210Lys 210conflict
Ala 212Val 212conflict
Ile 213Val 213conflict
Ser 214Thr 214conflict
Thr 231Ala 231conflict
Thr 232Ser 232conflict
G: 1 - 125 (UniProt: Q9UYS3)
PDBExternal DatabaseDetails
Ser 13Thr 13conflict
Val 19Ile 19conflict
Ala 24Pro 24conflict
Thr 26Ala 26conflict
Ala 40Val 40conflict
Asn 44Gly 44conflict
Leu 61Met 61conflict
Val 86Ile 86conflict
I: 1 - 130 (UniProt: Q9V1V0)
PDBExternal DatabaseDetails
Arg 68Lys 68conflict
Val 83Ala 83conflict
Ser 84Arg 84conflict
Glu 85Asp 85conflict
Phe 86Tyr 86conflict
Lys 88Arg 88conflict
Ile 117Arg 117conflict
J: 1 - 127 (UniProt: Q9UZL4)
PDBExternal DatabaseDetails
Lys 10Arg 10conflict
Arg 53Lys 53conflict
3: 1 - 123 (UniProt: P62008)
PDBExternal DatabaseDetails
Lys 119Arg 119conflict
L: 1 - 102 (UniProt: Q9V0V6)
PDBExternal DatabaseDetails
Ile 8Leu 8conflict
Asp 17Glu 17conflict
Thr 48Val 48conflict
Val 68Ile 68conflict
O: 1 - 148 (UniProt: Q9V1A0)
PDBExternal DatabaseDetails
Asn 3Asp 3conflict
Ile 31Val 31conflict
Ala 67Gln 67conflict
P: 1 - 56 (UniProt: P62012)
PDBExternal DatabaseDetails
Gln 34His 34conflict
S: 1 - 67 (UniProt: Q9V0G0)
PDBExternal DatabaseDetails
Val 17Phe 17conflict
Thr 26Arg 26conflict
Gln 36Glu 36conflict
Val 54Ile 54conflict
Met 62Glu 62conflict
T: 1 - 132 (UniProt: Q9V1T9)
PDBExternal DatabaseDetails
Arg 26Lys 26conflict
Phe 28Leu 28conflict
Lys 60Asn 60conflict
Ile 72Val 72conflict
Lys 112Arg 112conflict
Glu 114Gln 114conflict
Val 120Ile 120conflict
U: 1 - 150 (UniProt: Q9V0G8)
PDBExternal DatabaseDetails
Lys 89Arg 89conflict
X: 1 - 71 (UniProt: P61029)
PDBExternal DatabaseDetails
Ile 51Val 51conflict
Y: 1 - 50 (UniProt: P61238)
PDBExternal DatabaseDetails
Glu 9Ile 9conflict
Ile 10Val 10conflict
Lys 42Arg 42conflict
H: 1 - 215 (UniProt: Q9V109)
PDBExternal DatabaseDetails
Asn 6Ser 6conflict
Gln 113Lys 113conflict
Asn 176Thr 176conflict
K: 1 - 135 (UniProt: Q9V195)
PDBExternal DatabaseDetails
Ile 35Leu 35conflict
Ile 36Val 36conflict
Glu 67Gln 67conflict
Met 80Ile 80conflict
Ser 94Asn 94conflict
Met 100Ile 100conflict
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains36
Total formula weight1064692.7
Non-Polymers*Number of molecules4
Total formula weight761.1
All*Total formula weight1065453.8
*Water molecules are not included.

222036

PDB entries from 2024-07-03

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