4E8T - JenaLib

Title :   STRUCTURE OF OCEANOBACILLUS IHEYENSIS GROUP II INTRON IN THE PRESENCE OF K+, CA2+ AND AN OLIGONUCLEOTIDE FRAGMENT SUBSTRATE (LOW ENERGY DATASET)

Authors :   M. Marcia, A. M. Pyle

Date :   20 Mar 12 (Deposition) - 14 Nov 12 (Release) - 14 Nov 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.34

Chains :   Asym./Biol. Unit : A,B

Keywords :   Ribozyme, Metalloenzyme, Self-Splicing, Retrotransposition, Rna (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Marcia, A. M. Pyle
Visualizing Group Ii Intron Catalysis Through The Stages Of Splicing.
Cell(Cambridge, Mass. ) V. 151 497 2012
PubMed-ID: 23101623 | Reference-DOI: 10.1016/J.CELL.2012.09.033

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 47)

Sites (42, 42)

Asymmetric Unit (42, 42)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	U A:375 , C A:377 , U B:6 , U B:7	BINDING SITE FOR RESIDUE CA A 401
02	AC2	SOFTWARE	C A:358 , G A:359 , C A:377 , U B:7 , HOH B:101 , HOH B:102	BINDING SITE FOR RESIDUE CA A 402
03	AC3	SOFTWARE	C A:360 , G A:374	BINDING SITE FOR RESIDUE CA A 403
04	AC4	SOFTWARE	G A:324 , G A:325	BINDING SITE FOR RESIDUE CA A 404
05	AC5	SOFTWARE	G A:46 , HOH A:912	BINDING SITE FOR RESIDUE CA A 405
06	AC6	SOFTWARE	G A:107 , G A:108	BINDING SITE FOR RESIDUE CA A 406
07	AC7	SOFTWARE	C A:372 , G A:373	BINDING SITE FOR RESIDUE CA A 407
08	AC8	SOFTWARE	C A:119 , G A:239	BINDING SITE FOR RESIDUE CA A 408
09	AC9	SOFTWARE	A A:186	BINDING SITE FOR RESIDUE CA A 409
10	BC1	SOFTWARE	G A:136 , U A:225	BINDING SITE FOR RESIDUE CA A 411
11	BC2	SOFTWARE	G A:284	BINDING SITE FOR RESIDUE CA A 412
12	BC3	SOFTWARE	G A:169 , G A:170	BINDING SITE FOR RESIDUE CA A 414
13	BC4	SOFTWARE	A A:184	BINDING SITE FOR RESIDUE CA A 415
14	BC5	SOFTWARE	U A:66 , A A:67 , G A:68 , HOH A:914	BINDING SITE FOR RESIDUE CA A 416
15	BC6	SOFTWARE	A A:154 , G A:155 , U A:221 , HOH A:916 , HOH A:917	BINDING SITE FOR RESIDUE CA A 417
16	BC7	SOFTWARE	U A:285	BINDING SITE FOR RESIDUE CA A 418
17	BC8	SOFTWARE	U A:66 , A A:67	BINDING SITE FOR RESIDUE CA A 419
18	BC9	SOFTWARE	A A:283 , HOH A:918	BINDING SITE FOR RESIDUE CA A 420
19	CC1	SOFTWARE	A A:120 , A A:121 , A A:237	BINDING SITE FOR RESIDUE CA A 422
20	CC2	SOFTWARE	A A:181 , A A:222 , A A:223	BINDING SITE FOR RESIDUE CA A 423
21	CC3	SOFTWARE	SPM A:440	BINDING SITE FOR RESIDUE CA A 424
22	CC4	SOFTWARE	U A:65	BINDING SITE FOR RESIDUE CA A 425
23	CC5	SOFTWARE	G A:15 , G A:16 , U A:255 , U A:256	BINDING SITE FOR RESIDUE K A 426
24	CC6	SOFTWARE	A A:268 , G A:269 , G A:270	BINDING SITE FOR RESIDUE K A 427
25	CC7	SOFTWARE	U A:273 , G A:274 , G A:275 , HOH A:920	BINDING SITE FOR RESIDUE K A 428
26	CC8	SOFTWARE	U A:4 , G A:107 , U A:375 , A A:376	BINDING SITE FOR RESIDUE K A 429
27	CC9	SOFTWARE	G A:275 , A A:277 , HOH A:921	BINDING SITE FOR RESIDUE K A 430
28	DC1	SOFTWARE	G A:28	BINDING SITE FOR RESIDUE K A 431
29	DC2	SOFTWARE	G A:288 , C A:358 , G A:359 , C A:377	BINDING SITE FOR RESIDUE K A 433
30	DC3	SOFTWARE	G A:3 , U A:4 , G A:5 , A A:376	BINDING SITE FOR RESIDUE K A 434
31	DC4	SOFTWARE	G A:266 , HOH A:913	BINDING SITE FOR RESIDUE K A 435
32	DC5	SOFTWARE	HOH A:934	BINDING SITE FOR RESIDUE K A 436
33	DC6	SOFTWARE	G A:320 , G A:321	BINDING SITE FOR RESIDUE K A 438
34	DC7	SOFTWARE	U A:365	BINDING SITE FOR RESIDUE K A 439
35	DC8	SOFTWARE	U A:47 , G A:48 , G A:55 , A A:56 , G A:58 , CA A:424	BINDING SITE FOR RESIDUE SPM A 440
36	DC9	SOFTWARE	G A:30 , G A:32 , G A:34	BINDING SITE FOR RESIDUE SPM A 441
37	EC1	SOFTWARE	G A:300 , C A:304 , G A:314 , G A:315 , G A:316	BINDING SITE FOR RESIDUE EPE A 442
38	EC2	SOFTWARE	G A:97 , G A:98	BINDING SITE FOR RESIDUE EPE A 443
39	EC3	SOFTWARE	C A:39 , G A:242 , G A:243 , G A:244	BINDING SITE FOR RESIDUE EPE A 444
40	EC4	SOFTWARE	G A:114 , A A:115 , HOH A:933	BINDING SITE FOR RESIDUE EPE A 445
41	EC5	SOFTWARE	C A:116 , G A:117	BINDING SITE FOR RESIDUE EPE A 446
42	EC6	SOFTWARE	A A:77 , U A:103 , G A:104	BINDING SITE FOR RESIDUE EPE A 447

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Asymmetric/Biological Unit

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Chain A from PDB  Type:DNA/RNA  Length:388
                                                                                                                                                                                                                                                                                                                                                                                                                                    
                 4e8t A   3 GUGCCCGGCAUGGGUGCAGUCUAUAGGGUGAGAGUCCCGAACUGUGAAGGCAGAAGUAACAGUUAGCCUAACGCAAGGGUGUCCGUGGCGACAUGGAAUCUGAAGGAAGCGGACGGCAAACCUUCGGUCUGAGGAACACGAACUUCAUAUGAGGCUAGGUAUCAAUGGAUGAGUUUGCAUAACAAAACAAAGUCCUUUCUGCCAAAGUUGGUACAGAGUAAAUGAAGCAGAUUGAUGAAGGGAAAGACUGCAUUCUUACCCGGGGAGGUCUGGAAACAGAAGUCAGCAGAAGUCAUAGUACCCUGUUCGCAGGGGAAGGACGGAACAAGUAUGGCGUUCGCGCCUAAGCUUGAACCGCCGUAUACCGAACGGUACGUACGGUGGUGUG 390
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382

Chain B from PDB  Type:RNA  Length:8
                                        
                 4e8t B   1 AUUUAUUA   8

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Classification and Annotation

SCOP Domains (0, 0)

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