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1  structure 1  species 0  interactions 42  sequences 35  architectures

Structure: 5Z58

Summary

5z58
PDB entry 5z58: Cryo-EM structure of a human activated spliceosome (early Bact) at 4.9 angstrom.
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PDB entry 5z58

Cryo-em structure of a human activated spliceosome (early bact) at 4.9 angstrom.

Experiment type: Electron Microscopy, resolution 4.90Å
Release date: 2020-10-14
Authors: Zhang, X., Yan, C., Zhan, X., Li, L., Lei, J., Shi, Y.
Species: Homo sapiens (Human)

PDBprint

Below is the PDBprint for entry 5z58.

External database links

Domain organisation

Many structures in the PDB are linked to one or more UniProt protein sequence entries. This section shows the Pfam domains which are found on the UniProt sequence(s) referred to by this structure.

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Sequence mapping

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from PDBe, to allow us to map Pfam domains onto UniProt three-dimensional structures. The table below shows the sequences and Pfam domains that correspond to this structure.

PDB UniProt Pfam family
Chain Start End ID Start End
1 329 449 O75533 329 449 SF3b1 (PF08920)
2 470 596 Q13435 470 596 DUF382 (PF04037)
2 605 655 Q13435 605 655 PSP (PF04046)
3 76 592 Q15393 76 592 MMS1_N (PF10433)
3 863 1184 Q15393 863 1184 CPSF_A (PF03178)
4 15 85 Q15427 15 85 RRM_1 (PF00076)
5 21 88 Q9Y3B4 21 88 RRM_1 (PF00076)
6 7 95 Q7RTV0 7 95 PHF5 (PF03660)
7 15 80 Q9BWJ5 15 80 SF3b10 (PF07189)
a 8 73 P62318 8 73 LSM (PF01423)
A 58 209 Q6P2Q9 58 209 PRO8NT (PF08082)
A 395 801 Q6P2Q9 395 801 PROCN (PF08083)
A 986 1077 Q6P2Q9 986 1077 RRM_4 (PF10598)
A 1210 1334 Q6P2Q9 1210 1334 U5_2-snRNA_bdg (PF10597)
A 1442 1600 Q6P2Q9 1442 1600 U6-snRNA_bdg (PF10596)
A 1760 1989 Q6P2Q9 1760 1989 PRP8_domainIV (PF12134)
A 2099 2205 Q6P2Q9 2099 2205 JAB (PF01398)
A 2212 2333 Q6P2Q9 2212 2333 PROCT (PF08084)
b 8 82 P14678 8 82 LSM (PF01423)
c 5 70 P62314 5 70 LSM (PF01423)
C 56 99 Q15029 56 99 EFTUD2 (PF16004)
C 127 440 Q15029 127 440 GTP_EFTU (PF00009)
C 489 566 Q15029 489 566 GTP_EFTU_D2 (PF03144)
C 584 656 Q15029 584 656 EFG_III (PF14492)
C 703 824 Q15029 703 824 EFG_IV (PF03764)
C 826 915 Q15029 826 915 EFG_C (PF00679)
d 33 111 P62316 33 111 LSM (PF01423)
D 482 663 O75643 482 663 DEAD (PF00270)
D 703 860 O75643 703 860 Helicase_C (PF00271)
D 981 1285 O75643 981 1285 Sec63 (PF02889)
D 1329 1514 O75643 1329 1514 DEAD (PF00270)
D 1812 2123 O75643 1812 2123 Sec63 (PF02889)
e 23 89 P62304 23 89 LSM (PF01423)
E 58 94 Q96DI7 58 94 WD40 (PF00400)
E 99 137 Q96DI7 99 137 WD40 (PF00400)
E 141 180 Q96DI7 141 180 WD40 (PF00400)
E 186 221 Q96DI7 186 221 WD40 (PF00400)
E 224 263 Q96DI7 224 263 WD40 (PF00400)
E 271 313 Q96DI7 271 313 WD40 (PF00400)
E 317 353 Q96DI7 317 353 WD40 (PF00400)
f 9 74 P62306 9 74 LSM (PF01423)
g 7 72 P62308 7 72 LSM (PF01423)
h 8 73 P62318 8 73 LSM (PF01423)
i 7 82 P14678 7 82 LSM (PF01423)
j 5 70 P62314 5 70 LSM (PF01423)
J 256 288 Q9BZJ0 256 288 HAT (PF02184)
J 357 388 Q9BZJ0 357 388 HAT (PF02184)
k 33 111 P62316 33 111 LSM (PF01423)
L 11 71 Q99459 11 71 Myb_DNA-bind_6 (PF13921)
l 23 89 P62304 23 89 LSM (PF01423)
L 63 108 Q99459 63 108 Myb_DNA-bind_6 (PF13921)
m 9 74 P62306 9 74 LSM (PF01423)
M 197 223 O15541 197 223 zf-CCCH (PF00642)
n 7 72 P62308 7 72 LSM (PF01423)
o 2 163 P09661 2 163 LRR_9 (PF14580)
p 9 80 P08579 9 80 RRM_1 (PF00076)
P 25 229 Q9P013 25 229 Cwf_Cwc_15 (PF04889)
p 153 219 P08579 153 219 RRM_1 (PF00076)
R 175 339 Q13573 175 335 SKIP_SNW (PF02731)
T 194 232 O43660 194 232 WD40 (PF00400)
T 236 274 O43660 236 274 WD40 (PF00400)
T 278 316 O43660 278 316 WD40 (PF00400)
T 320 358 O43660 320 358 WD40 (PF00400)
T 403 440 O43660 403 440 WD40 (PF00400)
u 164 215 Q15459 164 215 Surp (PF01805)
u 237 285 Q15459 237 285 PRP21_like_P (PF12230)
v 114 206 Q15428 114 206 SF3A2 (PF16835)
V 455 559 Q9HCG8 455 559 MA3 (PF02847)
w 82 100 Q12874 82 100 SF3a60_bindingd (PF12108)
w 129 180 Q12874 129 180 SF3A3 (PF16837)
w 224 303 Q12874 224 303 SDE2_2C (PF13297)
w 392 499 Q12874 392 499 SF3a60_Prp9_C (PF11931)
X 281 359 Q8TAD8 281 359 FHA (PF00498)
x 402 562 O60231 402 562 DEAD (PF00270)
x 591 730 O60231 591 730 Helicase_C (PF00271)
x 792 935 O60231 792 935 HA2 (PF04408)
x 939 1015 O60231 939 1015 OB_NTP_bind (PF07717)
Y 38 108 Q9Y388 38 108 RRM_1 (PF00076)
z 14 166 Q6UX04 14 166 Pro_isomerase (PF00160)
Z 480 602 Q9BRD0 480 602 Bud13 (PF09736)

Note: This mapping was provided by the PDBe group.

View structure

View Pfam families and other data mapped to the structure of PDB entry 5z58 in InterPro