General information
PDB ID 5O9Z
Title CRYO-EM STRUCTURE OF A PRE-CATALYTIC HUMAN SPLICEOSOME PRIMED FOR ACTIVATION (B COMPLEX)
PDB header SPLICING
Date 2017-06-20
Experimental method ELECTRON MICROSCOPY
Resolution (A) 4.5
Kind rna
Organism HOMO SAPIENS
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PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
PRIDB
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb5o9z.pdb ABCDEFGHIJKLMNOPQRabcdefghijklmnopqrstuvwxyz1STUVWXZ Y2456 0
Biounits:
5o9z.pdb1.pdb ABCDEFGHIJKLMNOPQRabcdefghijklmnopqrstuvwxyz1STUVWXZ Y2456 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
RRM_1 Domain P08579_9-80 3.9e-10 1 CL0221 1 9 80   
PROCN Domain Q6P2Q9_395-801 1.9e-219 1 No_clan A 395 801 5Y   
PRP8_domainIV Domain Q6P2Q9_1760-1989 3.4e-130 1 No_clan A 1760 1989   
U6-snRNA_bdg Domain Q6P2Q9_1442-1600 4.4e-92 1 CL0363 A 1442 1600 6Y   
PRO8NT Domain Q6P2Q9_61-209 6.3e-84 1 No_clan A 63 209 56   
U5_2-snRNA_bdg Domain Q6P2Q9_1210-1343 4.4e-74 1 No_clan A 1210 1343 5   
PROCT Domain Q6P2Q9_2212-2319 2e-51 1 No_clan A 2212 2319   
RRM_4 Domain Q6P2Q9_986-1077 4.6e-48 1 No_clan A 986 1077   
LSM Domain P62316_33-111 1.3e-19 1 CL0527 a 33 111 56   
GTP_EFTU Domain Q15029_127-440 2e-45 1 CL0023 B 127 440   
EFG_IV Domain Q15029_703-824 1.1e-23 1 CL0329 B 703 824   
EFG_C Domain Q15029_826-915 1.7e-22 1 CL0437 B 826 915   
LSM Domain P62306_9-74 1e-21 1 CL0527 b 9 74 5   
GTP_EFTU_D2 Domain Q15029_489-566 1.2e-12 1 CL0575 B 489 566   
EFG_II Domain Q15029_584-656 5.7e-08 1 CL0437 B 584 656   
DEAD Domain O75643_1329-1514 7.5e-25 1 CL0023 C 1329 1514   
DEAD Domain O75643_482-663 1.5e-24 1 CL0023 C 482 663 4   
LSM Domain P62304_23-89 5.1e-18 1 CL0527 c 23 89 5   
LSM Domain P62308_7-72 4.9e-23 1 CL0527 d 7 72 5   
PRP3 Domain O43395_438-521 1.9e-42 1 No_clan E 438 521 6   
DUF1115 Domain 3e-23 1 CL0622 E 544 626 6
LSM Domain P62318_8-73 2.1e-16 1 CL0527 e 8 73 5   
DUF1115 Domain 3.5e-16 1 CL0622 E 603 673
LSM Domain P14678_7-82 1.2e-17 1 CL0527 f 7 82 5   
PRP4 Domain O43172_108-136 2.1e-14 1 No_clan F 107 135 4   
PRP1_N Domain O94906_13-169 6e-29 1 No_clan G 26 169 45   
LSM Domain P62314_5-70 1.8e-15 1 CL0527 g 5 70 5   
TPR_19 Domain O94906_619-684 2.8e-06 1 CL0020 G 619 684   
TPR_19 Domain O94906_619-684 0.00071 0 CL0020 G 721 784   
LSM Domain P62316_33-111 7.5e-20 1 CL0527 h 33 111 4   
LSM Domain P62306_9-74 9.4e-22 1 CL0527 i 9 74 4   
DIM1 Domain P83876_4-136 7.7e-70 1 CL0172 J 4 136 46   
LSM Domain P62304_23-89 5.1e-18 1 CL0527 j 23 89 4   
LSM Domain P62308_7-72 6e-23 1 CL0527 k 7 72 4   
LSM Domain P62318_8-73 1.5e-16 1 CL0527 l 8 73 4   
Pro_isomerase Domain O43447_14-176 1.6e-48 1 CL0475 M 14 176   
LSM Domain P14678_7-82 1.1e-20 1 CL0527 m 7 82   
LSM Domain P62314_5-70 1.8e-19 1 CL0527 n 5 70 4   
Ribosomal_L7Ae Domain P55769_20-114 2.3e-25 1 CL0101 O 20 114 4   
LSM Domain Q9Y333_5-72 3.7e-17 1 CL0527 o 5 72 4   
LSM Domain P62310_19-97 1.2e-20 1 CL0527 p 19 97   
LSM Domain Q9Y4Z0_5-71 1.3e-17 1 CL0527 q 5 71 Y   
zf-U1 Domain O75554_8-44 2.8e-17 1 CL0361 Q 8 44 Y   
LSM Domain Q9Y4Y9_16-84 8.6e-21 1 CL0527 r 16 84   
LSM Domain P62312_10-75 5.1e-20 1 CL0527 s 10 75   
LSM Domain P62316_33-111 1.9e-19 1 CL0527 S 33 111   
LSM Domain P62306_9-74 1.1e-21 1 CL0527 T 9 74   
LSM Domain Q9UK45_13-86 1.1e-21 1 CL0527 t 13 86   
LSM Domain O95777_4-72 3.8e-18 1 CL0527 u 4 72   
LSM Domain P62304_23-89 5.4e-18 1 CL0527 U 23 89   
LSM Domain P62308_7-72 6.3e-23 1 CL0527 V 7 72   
MMS1_N Domain Q15393_76-592 3.4e-181 1 No_clan w 76 592   
LSM Domain P62318_8-73 1.9e-14 1 CL0527 W 8 73   
LSM Domain P14678_7-82 1.4e-20 1 CL0527 X 7 82   
LSM Domain P62314_5-70 1.8e-19 1 CL0527 Z 5 70   
JAB Family Q6P2Q9_2099-2205 3.7e-13 1 CL0366 A 2099 2205   
Sec63 Family O75643_981-1285 7.8e-95 1 No_clan C 981 1285 4   
Sec63 Family O75643_1812-2123 1.4e-81 1 No_clan C 1812 2123 4   
Helicase_C Family O75643_703-860 7.8e-07 1 CL0023 C 703 860 4   
Nop Family Q8WWY3_99-330 2.1e-83 1 No_clan H 99 330 4   
Prp31_C Family Q8WWY3_337-448 3.1e-35 1 No_clan H 337 448 46   
PRP38 Family Q8NAV1_10-175 2.1e-63 1 No_clan I 10 175 4   
MFAP1 Family P55081_270-314 4.3e-14 1 No_clan K 270 314   
zf-C2H2_jaz Family Q96NC0_79-105 8e-08 1 CL0361 N 79 105 Y6   
SART-1 Family O43290_142-307 8.5e-13 1 No_clan P 142 290   
CPSF_A Family Q15393_863-1184 6.8e-100 1 CL0186 w 863 1184   
SF3b10 Family Q9BWJ5_27-80 2.2e-25 1 No_clan x 27 80   
PHF5 Family Q7RTV0_7-95 1.4e-41 1 No_clan y 7 96   
WD40 Repeat Q96DI7_186-221 6.9e-07 1 CL0186 D 56 94 5   
WD40 Repeat Q96DI7_56-94 7.9e-07 1 CL0186 D 224 263   
WD40 Repeat Q96DI7_56-94 3.6e-06 1 CL0186 D 141 180   
WD40 Repeat Q96DI7_271-313 1.8e-05 1 CL0186 D 271 313   
WD40 Repeat 0.00015 1 CL0186 D 99 137
WD40 Repeat Q96DI7_186-221 0.00066 1 CL0186 D 317 353   
WD40 Repeat O43172_313-351 1.1e-08 1 CL0186 F 396 434   
WD40 Repeat O43172_313-351 4.3e-07 1 CL0186 F 481 519   
WD40 Repeat O43172_215-259 1.7e-05 1 CL0186 F 262 308   
WD40 Repeat Q2TAY7_204-242 3.4e-08 1 CL0186 L 339 377   
WD40 Repeat Q2TAY7_204-242 6.7e-07 1 CL0186 L 154 242   
WD40 Repeat Q2TAY7_204-242 2.4e-06 1 CL0186 L 296 334   
WD40 Repeat Q2TAY7_204-242 0.00026 1 CL0186 L 252 292   
LRR_9 Repeat P09661_2-163 2.3e-88 1 CL0022 z 2 163   
SCOP domains
No SCOP domains
GO terms
No GO terms
Sequences
Download file with secondary structure created by Stride  
5o9z.pdb1.pdb:   [ download sequences in FASTA format ]
1 (protein): 
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a (protein): 
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B (protein): 
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c (protein): 
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d (protein): 
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e (protein): 
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f (protein): 
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g (protein): 
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H (protein): 
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i (protein): 
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j (protein): 
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k (protein): 
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l (protein): 
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m (protein): 
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N (protein): 
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O (protein): 
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p (protein): 
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Q (protein): 
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r (protein): 
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s (protein): 
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T (protein): 
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u (protein): 
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V (protein): 
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w (protein): 
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x (protein): 
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z (protein): 
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2 (rna): 
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4 (rna): 
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5 (rna): 
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6 (rna): 
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Y (rna): 
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