5M0I - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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Title :   CRYSTAL STRUCTURE OF THE NUCLEAR COMPLEX WITH SHE2P AND THE ASH1 MRNA E3-LOCALIZATION ELEMENT

Authors :   F. T. Edelmann, R. Janowski, D. Niessing

Date :   05 Oct 16 (Deposition) - 18 Jan 17 (Release) - 15 Feb 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.41

Chains :   Asym./Biol. Unit : A,B,C,D,E,F,H,I,J

Keywords :   She2P, Ash1-Mrna, Mrna Transport, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   F. T. Edelmann, A. Schlundt, R. G. Heym, A. Jenner, A. Niedner-Boblenz M. I. Syed, J. C. Paillart, R. Stehle, R. Janowski, M. Sattler, R. P. Jansen, D. Niessing
Molecular Architecture And Dynamics Of Ash1 Mrna Recognitio By Its Mrna-Transport Complex.
Nat. Struct. Mol. Biol. V. 24 152 2017
PubMed-ID: 28092367 | Reference-DOI: 10.1038/NSMB.3351

Molecule 1 - SWI5-DEPENDENT HO EXPRESSION PROTEIN 2
	Chains	:	D, C, B, A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	SHE2, SCRG_03894
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	285006
	Strain	:	RM11-1A

Molecule 2 - ASH1-E3 ELEMENT, RNA (28-MER)
	Chains	:	E, F
	Engineered	:	YES
	Organism Common	:	BAKER'S YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	4932
	Synthetic	:	YES

Molecule 3 - SWI5-DEPENDENT HO EXPRESSION PROTEIN 3
	Chains	:	H, J, I
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	SHE3, YBR130C, YBR1005
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE S288C
	Organism Taxid	:	559292

		1	2	3	4	5	6	7	8	9
Asymmetric/Biological Unit	:	A	B	C	D	E	F	H	I	J

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 23)

No.	Name	Count	Type	Full Name
1	ACT	6	Ligand/Ion	ACETATE ION
2	EDO	11	Ligand/Ion	1,2-ETHANEDIOL
3	MG	6	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (21, 21)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLN D:156 , ILE D:159 , LEU D:169 , LEU D:171 , VAL D:174	binding site for residue EDO D 301
02	AC2	SOFTWARE	ASP D:111 , ASN D:114 , TYR D:115 , ASP D:145 , TYR D:148 , HOH D:403	binding site for residue EDO D 302
03	AC3	SOFTWARE	GLU D:124	binding site for residue MG D 303
04	AC4	SOFTWARE	ASP D:170 , GLN D:175	binding site for residue ACT D 304
05	AC5	SOFTWARE	GLU C:172 , GLN C:175 , PHE C:176	binding site for residue EDO C 301
06	AC6	SOFTWARE	SER C:166 , ASP C:170 , GLN C:175	binding site for residue EDO C 302
07	AC7	SOFTWARE	ILE C:56 , LYS C:60 , TYR D:115	binding site for residue EDO C 303
08	AC8	SOFTWARE	ILE C:159 , LEU C:169 , ASP C:170 , LEU C:171 , VAL C:174	binding site for residue EDO C 304
09	AC9	SOFTWARE	ASP C:111 , ASN C:114 , ASP C:145 , TYR C:148 , HOH C:404	binding site for residue EDO C 305
10	AD1	SOFTWARE	SER C:101 , MET C:102 , LYS C:105 , SER D:101 , LEU D:168 , LEU D:169	binding site for residue EDO C 306
11	AD2	SOFTWARE	TYR C:116	binding site for residue MG C 307
12	AD3	SOFTWARE	ASP B:111 , ASN B:114 , TYR B:115 , ASP B:145 , TYR B:148 , HOH B:419	binding site for residue EDO B 301
13	AD4	SOFTWARE	THR B:129 , ASN B:131 , LEU B:134	binding site for residue ACT B 303
14	AD5	SOFTWARE	ASP A:170 , GLN A:175 , LYS A:179 , PHE B:64 , SER B:68	binding site for residue EDO A 301
15	AD6	SOFTWARE	U E:7	binding site for residue EDO E 101
16	AD7	SOFTWARE	A E:9 , A E:10 , HOH E:228	binding site for residue ACT E 102
17	AD8	SOFTWARE	A E:5 , A E:20 , HOH E:240	binding site for residue ACT E 103
18	AD9	SOFTWARE	G E:13 , A E:15 , A E:16	binding site for residue ACT E 104
19	AE1	SOFTWARE	C F:6 , U F:7 , HOH F:227 , HOH F:236	binding site for residue MG F 101
20	AE2	SOFTWARE	HOH C:448 , U F:7 , G F:8	binding site for residue MG F 102
21	AE3	SOFTWARE	A F:5 , A F:20	binding site for residue ACT F 103

(no "SS Bond" information available for 5M0I)

Asymmetric/Biological Unit

No.	Residues
1	Asp C:86	-	Pro C:87

(no "SAP(SNP)/Variant" information available for 5M0I)

(no "PROSITE Motif" information available for 5M0I)

(no "Exon" information available for 5M0I)

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:225
                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhh...hhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5m0i A   3 LGSDIKVTPGTSELVEQILALLSRYLSSYIHVLNKFISHLRRVATLRFERTTLIKFVKKLRFYNDSVLSYNASEFIADSFDKVILPIASMFVKSVETFDLLNYYLTQSLQKEILSKTLNEDLTLTAESILAIDDTYNHFVKFSQWMIESLRIGSNLLDLEVVQFAIKSADEDGDNIFLQEILPVNSEEEFQTLSAAWHSILDGKLSALDEEFDVVATKWHDKFGK 243
                                    12        22        32        42        52        62        72     || 92       102       112       122       132       142       152       162       172       182  ||   198       208       218       228       238     
                                                                                                      78|                                                                                             185|                                                   
                                                                                                       89                                                                                              192

Chain B from PDB  Type:PROTEIN  Length:238
                                                                                                                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhh...............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5m0i B   3 LGSDIKVTPGTSELVEQILALLSRYLSSYIHVLNKFISHLRRVATLRFERTTLIKFVKKLRFYNDSVLSYNASEFINEGKNELDPEADSFDKVILPIASMFVKSVETFDLLNYYLTQSLQKEILSKTLNEDLTLTAESILAIDDTYNHFVKFSQWMIESLRIGSNLLDLEVVQFAIKSADEDGTDNIFLQEILPVNSEEEFQTLSAAWHSILDGKLSALDEEFDVVATKWHDKFGKLK 245
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182  ||   197       207       217       227       237        
                                                                                                                                                                                                                185|                                                      
                                                                                                                                                                                                                 191

Chain C from PDB  Type:PROTEIN  Length:240
                                                                                                                                                                                                                                                                                
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh....................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5m0i C   3 LGSDIKVTPGTSELVEQILALLSRYLSSYIHVLNKFISHLRRVATLRFERTTLIKFVKKLRFYNDSVLSYNASEFINEGKDPEADSFDKVILPIASMFVKSVETFDLLNYYLTQSLQKEILSKTLNEDLTLTAESILAIDDTYNHFVKFSQWMIESLRIGSNLLDLEVVQFAIKSADEDGTNIGETDNIFLQEILPVNSEEEFQTLSAAWHSILDGKLSALDEEFDVVATKWHDKFGKLK 245
                                    12        22        32        42        52        62        72        82|       95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245
                                                                                                          82|                                                                                                                                                               
                                                                                                           86

Chain D from PDB  Type:PROTEIN  Length:235
                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhh....hhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5m0i D   3 LGSDIKVTPGTSELVEQILALLSRYLSSYIHVLNKFISHLRRVATLRFERTTLIKFVKKLRFYNDSVLSYNASEFINEGKNELDPEADSFDKVILPIASMFVKSVETFDLLNYYLTQSLQKEILSKTLNEDLTLTAESILAIDDTYNHFVKFSQWMIESLRIGSNLLDLEVVQFAIKSADEDETDNIFLQEILPVNSEEEFQTLSAAWHSILDGKLSALDEEFDVVATKWHDKFG 242
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182 ||    197       207       217       227       237     
                                                                                                                                                                                                               184|                                                    
                                                                                                                                                                                                                190

Chain E from PDB  Type:RNA  Length:28
                                                            
                 5m0i E   1 GAUAACUGAAUCGAAAGACAUUAUCACG  28
                                    10        20

Chain F from PDB  Type:RNA  Length:28
                                                            
                 5m0i F   1 GAUAACUGAAUCGAAAGACAUUAUCACG  28
                                    10        20

Chain H from PDB  Type:PROTEIN  Length:8
                                        
               SCOP domains -------- SCOP domains
               CATH domains -------- CATH domains
               Pfam domains -------- Pfam domains
         Sec.struct. author ........ Sec.struct. author
                 SAPs(SNPs) -------- SAPs(SNPs)
                    PROSITE -------- PROSITE
                 Transcript -------- Transcript
                 5m0i H 398 SVPPGVTR 405

Chain I from PDB  Type:PROTEIN  Length:7
                                       
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                 5m0i I 397 ISVPPGV 403

Chain J from PDB  Type:PROTEIN  Length:7
                                       
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                 5m0i J 397 ISVPPGV 403

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
		→ Modified Residue	(blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
	x	→ Chemical Group	(purple background, 'x', labelled with number + name, e.g. ACE or NH2)
	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

(no "SCOP Domain" information available for 5M0I)

(no "CATH Domain" information available for 5M0I)

(no "Pfam Domain" information available for 5M0I)

Asymmetric/Biological Unit(hide GO term definitions)

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Asp C:86 - Pro C:87	[ RasMol ]

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	5m0i
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	SHE2_YEAS1 \| B3LQW9
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	SHE2_YEAST \| P36068
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	SHE3_YEAST \| P38272
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UniProtKB/Swiss-Prot
	SHE2_YEAS1 \| B3LQW9	:	5m0j
	SHE2_YEAST \| P36068	:	1xly 4wnl 5m0j
	SHE3_YEAST \| P38272	:	4ll7 4ll8 4wnl 5m0j

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 23)

Sites (21, 21)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (15, 29)

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Related Entries

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Related Entries Specified in the PDB File