3K49 - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Title :   PUF3 RNA BINDING DOMAIN BOUND TO COX17 RNA 3' UTR RECOGNITION SEQUENCE SITE B

Authors :   D. Zhu, C. R. Stumpf, J. M. Krahn, M. Wickens, T. M. T. Hall

Date :   05 Oct 09 (Deposition) - 27 Oct 09 (Release) - 09 Feb 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

Chains :   Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)
Biol. Unit 3: E,F  (1x)

Keywords :   Puf3, Pumilio, Rna Binding, Mitochondrial Mrna, , Membrane, Mitochondrion, Mitochondrion Outer Membrane, Phosphoprotein, Rna- Binding, Rna Binding Protein - Rna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. Zhu, C. R. Stumpf, J. M. Krahn, M. Wickens, T. M. Hall
A 5' Cytosine Binding Pocket In Puf3P Specifies Regulation Of Mitochondrial Mrnas.
Proc. Natl. Acad. Sci. Usa V. 106 20192 2009
PubMed-ID: 19918084 | Reference-DOI: 10.1073/PNAS.0812079106

Molecule 1 - MRNA-BINDING PROTEIN PUF3
	Chains	:	A, C, E
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PTYB3
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 511-879
	Gene	:	L1325, PUF3, YLL013C
	Organism Common	:	BREWER'S YEAST,LAGER BEER YEAST,YEAST
	Organism Scientific	:	SACCHAROMYCES CEREVISIAE
	Organism Taxid	:	4932
	Synonym	:	PUMILIO HOMOLOGY DOMAIN FAMILY MEMBER 3

*Molecule 2 - RNA (5'-R(CPCPUPGPUPAPAPAPUPA)-3')*
	Chains	:	B, D, F
	Engineered	:	YES
	Other Details	:	COX17 SITE B
	Other Details - Source	:	RNA OLIGONUCLEOTIDES WERE OBTAINED FROM DHARMACON, INC.
	Synthetic	:	YES

		1	2	3	4	5	6
Asymmetric Unit	:	A	B	C	D	E	F
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D
Biological Unit 3 (1x)	:					E	F

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 3)

No.	Name	Count	Type	Full Name
1	CIT	3	Ligand/Ion	CITRIC ACID

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	CIT	1	Ligand/Ion	CITRIC ACID

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	CIT	1	Ligand/Ion	CITRIC ACID

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	CIT	1	Ligand/Ion	CITRIC ACID

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:626	BINDING SITE FOR RESIDUE CIT A 1
2	AC2	SOFTWARE	HOH C:75 , HOH C:238 , GLU C:633 , LYS C:666 , A D:8 , LYS E:537	BINDING SITE FOR RESIDUE CIT C 2
3	AC3	SOFTWARE	HOH E:54 , ARG E:626 , GLU E:633 , A F:8	BINDING SITE FOR RESIDUE CIT E 3

(no "SS Bond" information available for 3K49)

(no "Cis Peptide Bond" information available for 3K49)

(no "SAP(SNP)/Variant" information available for 3K49)

Asymmetric Unit (1, 24)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PUM	PS50302	Pumilio RNA-binding repeat profile.	PUF3_YEAST	538-573 574-609 610-646 682-717 647-681 718-759 760-795 807-844	24	A:538-573 C:538-573 E:538-573 A:574-609 C:574-609 E:574-609 A:610-646 C:610-646 E:610-646 A:682-717 C:682-717 E:682-717 A:647-681 C:647-681 E:647-681 A:718-759 C:718-759 E:718-759 A:760-795 C:760-795 E:760-795 A:807-844 C:807-844 E:807-844

Biological Unit 1 (1, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PUM	PS50302	Pumilio RNA-binding repeat profile.	PUF3_YEAST	538-573 574-609 610-646 682-717 647-681 718-759 760-795 807-844	8	A:538-573 - - A:574-609 - - A:610-646 - - A:682-717 - - A:647-681 - - A:718-759 - - A:760-795 - - A:807-844 - -

Biological Unit 2 (1, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PUM	PS50302	Pumilio RNA-binding repeat profile.	PUF3_YEAST	538-573 574-609 610-646 682-717 647-681 718-759 760-795 807-844	8	- C:538-573 - - C:574-609 - - C:610-646 - - C:682-717 - - C:647-681 - - C:718-759 - - C:760-795 - - C:807-844 -

Biological Unit 3 (1, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PUM	PS50302	Pumilio RNA-binding repeat profile.	PUF3_YEAST	538-573 574-609 610-646 682-717 647-681 718-759 760-795 807-844	8	- - E:538-573 - - E:574-609 - - E:610-646 - - E:682-717 - - E:647-681 - - E:718-759 - - E:760-795 - - E:807-844

(no "Exon" information available for 3K49)

Asymmetric 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:353
 aligned with PUF3_YEAST | Q07807 from UniProtKB/Swiss-Prot  Length:879

    Alignment length:361
                                   524       534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854       864       874 
           PUF3_YEAST   515 SPLLEQLRNSSSDKNSNSNMSLKDIFGHSLEFCKDQHGSRFIQRELATSPASEKEVIFNEIRDDAIELSNDVFGNYVIQKFFEFGSKIQKNTLVDQFKGNMKQLSLQMYACRVIQKALEYIDSNQRIELVLELSDSVLQMIKDQNGNHVIQKAIETIPIEKLPFILSSLTGHIYHLSTHSYGCRVIQRLLEFGSSEDQESILNELKDFIPYLIQDQYGNYVIQYVLQQDQFTNKEMVDIKQEIIETVANNVVEYSKHKFASNVVEKSILYGSKNQKDLIISKILPRDKNHALNLEDDSPMILMIKDQFANYVIQKLVNVSEGEGKKLIVIAIRAYLDKLNKSNSLGNRHLASVEKLAALVE 875
               SCOP domains d3k49a_ A:       automated matches                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains 3k49A00 A:5      15-875 Leucine-rich Repeat Variant                                                                                                                                                                                                                                                                                                                       CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhh..------...hhhhhh.hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhh.hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhh.hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhh....hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.--....hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------PUM  PDB: A:538-573 UniProt: 538-573PUM  PDB: A:574-609 UniProt: 574-609PUM  PDB: A:610-646 UniProt: 610-646 PUM  PDB: A:647-681                PUM  PDB: A:682-717 UniProt: 682-717PUM  PDB: A:718-759 UniProt: 718-759      PUM  PDB: A:760-795 UniProt: 760-795-----------PUM  PDB: A:807-844 UniProt: 807-844  ------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3k49 A 515 SPLLEQLRNSS------SNMSLKDIFGHSLEFCKDQHGSRFIQRELATSPASEKEVIFNEIRDDAIELSNDVFGNYVIQKFFEFGSKIQKNTLVDQFKGNMKQLSLQMYACRVIQKALEYIDSNQRIELVLELSDSVLQMIKDQNGNHVIQKAIETIPIEKLPFILSSLTGHIYHLSTHSYGCRVIQRLLEFGSSEDQESILNELKDFIPYLIQDQYGNYVIQYVLQQDQFTNKEMVDIKQEIIETVANNVVEYSKHKFASNVVEKSILYGSKNQKDLIISKILPRDKNHALNLEDDSPMILMIKDQFANYVIQKLVNVSEGEGKKLIVIAIRAYLDKLNKSN--GNRHLASVEKLAALVE 875
                                   524|      534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854  |  | 864       874 
                                    525    532                                                                                                                                                                                                                                                                                                                                  857  |               
                                                                                                                                                                                                                                                                                                                                                                                   860

Chain B from PDB  Type:RNA  Length:10
                                          
                 3k49 B   1 CCUGUAAAUA  10
                                    10

Chain C from PDB  Type:PROTEIN  Length:353
 aligned with PUF3_YEAST | Q07807 from UniProtKB/Swiss-Prot  Length:879

    Alignment length:361
                                   524       534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854       864       874 
           PUF3_YEAST   515 SPLLEQLRNSSSDKNSNSNMSLKDIFGHSLEFCKDQHGSRFIQRELATSPASEKEVIFNEIRDDAIELSNDVFGNYVIQKFFEFGSKIQKNTLVDQFKGNMKQLSLQMYACRVIQKALEYIDSNQRIELVLELSDSVLQMIKDQNGNHVIQKAIETIPIEKLPFILSSLTGHIYHLSTHSYGCRVIQRLLEFGSSEDQESILNELKDFIPYLIQDQYGNYVIQYVLQQDQFTNKEMVDIKQEIIETVANNVVEYSKHKFASNVVEKSILYGSKNQKDLIISKILPRDKNHALNLEDDSPMILMIKDQFANYVIQKLVNVSEGEGKKLIVIAIRAYLDKLNKSNSLGNRHLASVEKLAALVE 875
               SCOP domains d3k49c_ C:       automated matches                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains 3k49C00 C:5      15-875 Leucine-rich Repeat Variant                                                                                                                                                                                                                                                                                                                       CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhh..------...hhhhhh.hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhh.hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhh....hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.--....hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------PUM  PDB: C:538-573 UniProt: 538-573PUM  PDB: C:574-609 UniProt: 574-609PUM  PDB: C:610-646 UniProt: 610-646 PUM  PDB: C:647-681                PUM  PDB: C:682-717 UniProt: 682-717PUM  PDB: C:718-759 UniProt: 718-759      PUM  PDB: C:760-795 UniProt: 760-795-----------PUM  PDB: C:807-844 UniProt: 807-844  ------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3k49 C 515 SPLLEQLRNSS------SNMSLKDIFGHSLEFCKDQHGSRFIQRELATSPASEKEVIFNEIRDDAIELSNDVFGNYVIQKFFEFGSKIQKNTLVDQFKGNMKQLSLQMYACRVIQKALEYIDSNQRIELVLELSDSVLQMIKDQNGNHVIQKAIETIPIEKLPFILSSLTGHIYHLSTHSYGCRVIQRLLEFGSSEDQESILNELKDFIPYLIQDQYGNYVIQYVLQQDQFTNKEMVDIKQEIIETVANNVVEYSKHKFASNVVEKSILYGSKNQKDLIISKILPRDKNHALNLEDDSPMILMIKDQFANYVIQKLVNVSEGEGKKLIVIAIRAYLDKLNKSN--GNRHLASVEKLAALVE 875
                                   524|      534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854  |  | 864       874 
                                    525    532                                                                                                                                                                                                                                                                                                                                  857  |               
                                                                                                                                                                                                                                                                                                                                                                                   860

Chain D from PDB  Type:RNA  Length:10
                                          
                 3k49 D   1 CCUGUAAAUA  10
                                    10

Chain E from PDB  Type:PROTEIN  Length:353
 aligned with PUF3_YEAST | Q07807 from UniProtKB/Swiss-Prot  Length:879

    Alignment length:361
                                   524       534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854       864       874 
           PUF3_YEAST   515 SPLLEQLRNSSSDKNSNSNMSLKDIFGHSLEFCKDQHGSRFIQRELATSPASEKEVIFNEIRDDAIELSNDVFGNYVIQKFFEFGSKIQKNTLVDQFKGNMKQLSLQMYACRVIQKALEYIDSNQRIELVLELSDSVLQMIKDQNGNHVIQKAIETIPIEKLPFILSSLTGHIYHLSTHSYGCRVIQRLLEFGSSEDQESILNELKDFIPYLIQDQYGNYVIQYVLQQDQFTNKEMVDIKQEIIETVANNVVEYSKHKFASNVVEKSILYGSKNQKDLIISKILPRDKNHALNLEDDSPMILMIKDQFANYVIQKLVNVSEGEGKKLIVIAIRAYLDKLNKSNSLGNRHLASVEKLAALVE 875
               SCOP domains d3k49e_ E:       automated matches                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains 3k49E00 E:5      15-875 Leucine-rich Repeat Variant                                                                                                                                                                                                                                                                                                                       CATH domains
           Pfam domains (1) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E01 E:760-794              --------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E02 E:760-794              --------------------------------------------------------------------------------- Pfam domains (2)
           Pfam domains (3) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E03 E:760-794              --------------------------------------------------------------------------------- Pfam domains (3)
           Pfam domains (4) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E04 E:760-794              --------------------------------------------------------------------------------- Pfam domains (4)
           Pfam domains (5) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E05 E:760-794              --------------------------------------------------------------------------------- Pfam domains (5)
           Pfam domains (6) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E06 E:760-794              --------------------------------------------------------------------------------- Pfam domains (6)
           Pfam domains (7) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E07 E:760-794              --------------------------------------------------------------------------------- Pfam domains (7)
           Pfam domains (8) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E08 E:760-794              --------------------------------------------------------------------------------- Pfam domains (8)
           Pfam domains (9) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E09 E:760-794              --------------------------------------------------------------------------------- Pfam domains (9)
          Pfam domains (10) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E10 E:760-794              --------------------------------------------------------------------------------- Pfam domains (10)
          Pfam domains (11) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E11 E:760-794              --------------------------------------------------------------------------------- Pfam domains (11)
          Pfam domains (12) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E12 E:760-794              --------------------------------------------------------------------------------- Pfam domains (12)
          Pfam domains (13) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E13 E:760-794              --------------------------------------------------------------------------------- Pfam domains (13)
          Pfam domains (14) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E14 E:760-794              --------------------------------------------------------------------------------- Pfam domains (14)
          Pfam domains (15) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E15 E:760-794              --------------------------------------------------------------------------------- Pfam domains (15)
          Pfam domains (16) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E16 E:760-794              --------------------------------------------------------------------------------- Pfam domains (16)
          Pfam domains (17) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E17 E:760-794              --------------------------------------------------------------------------------- Pfam domains (17)
          Pfam domains (18) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PUF-3k49E18 E:760-794              --------------------------------------------------------------------------------- Pfam domains (18)
         Sec.struct. author hhhhhhhhh..------...hhhhhh.hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhh.hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhh....hhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.--....hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------PUM  PDB: E:538-573 UniProt: 538-573PUM  PDB: E:574-609 UniProt: 574-609PUM  PDB: E:610-646 UniProt: 610-646 PUM  PDB: E:647-681                PUM  PDB: E:682-717 UniProt: 682-717PUM  PDB: E:718-759 UniProt: 718-759      PUM  PDB: E:760-795 UniProt: 760-795-----------PUM  PDB: E:807-844 UniProt: 807-844  ------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3k49 E 515 SPLLEQLRNSS------SNMSLKDIFGHSLEFCKDQHGSRFIQRELATSPASEKEVIFNEIRDDAIELSNDVFGNYVIQKFFEFGSKIQKNTLVDQFKGNMKQLSLQMYACRVIQKALEYIDSNQRIELVLELSDSVLQMIKDQNGNHVIQKAIETIPIEKLPFILSSLTGHIYHLSTHSYGCRVIQRLLEFGSSEDQESILNELKDFIPYLIQDQYGNYVIQYVLQQDQFTNKEMVDIKQEIIETVANNVVEYSKHKFASNVVEKSILYGSKNQKDLIISKILPRDKNHALNLEDDSPMILMIKDQFANYVIQKLVNVSEGEGKKLIVIAIRAYLDKLNKSN--GNRHLASVEKLAALVE 875
                                   524|      534       544       554       564       574       584       594       604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784       794       804       814       824       834       844       854  |  | 864       874 
                                    525    532                                                                                                                                                                                                                                                                                                                                  857  |               
                                                                                                                                                                                                                                                                                                                                                                                   860

Chain F from PDB  Type:RNA  Length:10
                                          
                 3k49 F   1 CCUGUAAAUA  10
                                    10

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: alpha-alpha superhelix (690)

Superfamily: ARM repeat (317)

Family: automated matches (39)

Protein domain: automated matches (39)

Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] (6)

1a	d3k49a_	A:
1b	d3k49c_	C:
1c	d3k49e_	E:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Alpha Horseshoe (399)

Topology: Leucine-rich Repeat Variant (77)

Homologous Superfamily: Leucine-rich Repeat Variant (75)

Brewer's yeast,lager beer yeast,yeast (Saccharomyces cerevisiae) (2)

1a	3k49A00	A:515-875
1b	3k49C00	C:515-875
1c	3k49E00	E:515-875

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: TPR (230)

Family: PUF (24)

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Bakers yeast) (2)

1a	PUF-3k49E01	E:760-794
1b	PUF-3k49E02	E:760-794
1c	PUF-3k49E03	E:760-794
1d	PUF-3k49E04	E:760-794
1e	PUF-3k49E05	E:760-794
1f	PUF-3k49E06	E:760-794
1g	PUF-3k49E07	E:760-794
1h	PUF-3k49E08	E:760-794
1i	PUF-3k49E09	E:760-794
1j	PUF-3k49E10	E:760-794
1k	PUF-3k49E11	E:760-794
1l	PUF-3k49E12	E:760-794
1m	PUF-3k49E13	E:760-794
1n	PUF-3k49E14	E:760-794
1o	PUF-3k49E15	E:760-794
1p	PUF-3k49E16	E:760-794
1q	PUF-3k49E17	E:760-794
1r	PUF-3k49E18	E:760-794

Asymmetric Unit(hide GO term definitions)

Chain A,C,E (PUF3_YEAST | Q07807)

molecular function
	GO:0003723	RNA binding	Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
	GO:0003729	mRNA binding	Interacting selectively and non-covalently with messenger RNA (mRNA), an intermediate molecule between DNA and protein. mRNA includes UTR and coding sequences, but does not contain introns.
biological process
	GO:0009060	aerobic respiration	The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which requires oxygen as the terminal electron acceptor.
	GO:0008298	intracellular mRNA localization	Any process in which mRNA is transported to, or maintained in, a specific location within the cell.
	GO:0051646	mitochondrion localization	Any process in which a mitochondrion or mitochondria are transported to, and/or maintained in, a specific location within the cell.
	GO:0007005	mitochondrion organization	A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a mitochondrion; includes mitochondrial morphogenesis and distribution, and replication of the mitochondrial genome as well as synthesis of new mitochondrial components.
	GO:0000956	nuclear-transcribed mRNA catabolic process	The chemical reactions and pathways resulting in the breakdown of nuclear-transcribed mRNAs in eukaryotic cells.
	GO:0000288	nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	A major pathway of degradation of nuclear-transcribed mRNAs that proceeds through a series of ordered steps that includes poly(A) tail shortening and that can regulate mRNA stability.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0032473	cytoplasmic side of mitochondrial outer membrane	The external (cytoplasmic) face of the mitochondrial outer membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005741	mitochondrial outer membrane	The outer, i.e. cytoplasm-facing, lipid bilayer of the mitochondrial envelope.
	GO:0005739	mitochondrion	A semiautonomous, self replicating organelle that occurs in varying numbers, shapes, and sizes in the cytoplasm of virtually all eukaryotic cells. It is notably the site of tissue respiration.

Asymmetric Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3k49)

Biological Units
	Complete Structure
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Jmol
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Access by PDB/NDB ID
	3k49
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		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
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	PUF3_YEAST \| Q07807
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	PUF3_YEAST \| Q07807
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	PUF3_YEAST \| Q07807	:	3k4e

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 3)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 24)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 3)

CATH Domains (1, 3)

Pfam Domains (1, 18)

Gene Ontology (13, 13)

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Databases

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File