1Q40 - JenaLib

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Biological Unit 1 (Jmol Viewer)

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Biological Unit 3 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE C. ALBICANS MTR2-MEX67 M DOMAIN COMPLEX

Authors :   C. Senay, P. Ferrari, C. Rocher, K. J. Rieger, J. Winter, D. Platel, Y. Bo

Date :   01 Aug 03 (Deposition) - 09 Dec 03 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.95

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

Keywords :   Ntf2-Fold; Nuclear Export, Translation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Senay, P. Ferrari, C. Rocher, K. J. Rieger, J. Winter, D. Platel, Y. Bourne
The Mtr2-Mex67 Ntf2-Like Domain Complex: Structural Insight Into A Dual Role Of Mtr2 For Yeast Nuclear Export
J. Biol. Chem. V. 278 48395 2003
PubMed-ID: 14504280 | Reference-DOI: 10.1074/JBC.M308275200

Molecule 1 - MRNA TRANSPORT REGULATOR MTR2
	Chains	:	A, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	CANDIDA ALBICANS
	Organism Taxid	:	5476
	Synonym	:	MTR2

Molecule 2 - MRNA EXPORT FACTOR MEX67
	Chains	:	B, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	M DOMAIN, RESIDUES 293-512
	Organism Scientific	:	CANDIDA ALBICANS
	Organism Taxid	:	5476
	Synonym	:	MEX67

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D
Biological Unit 3 (1x)	:	A (1x)	B (1x)	C (1x)	D (1x)

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 19)

No.	Name	Count	Type	Full Name
1	GOL	3	Ligand/Ion	GLYCEROL
2	MSE	16	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (2, 10)

No.	Name	Count	Type	Full Name
1	GOL	2	Ligand/Ion	GLYCEROL
2	MSE	8	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (2, 9)

No.	Name	Count	Type	Full Name
1	GOL	1	Ligand/Ion	GLYCEROL
2	MSE	8	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 3 (2, 10)

No.	Name	Count	Type	Full Name
1	GOL	2	Ligand/Ion	GLYCEROL
2	MSE	8	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LEU A:80 , ASP A:110 , SER A:112 , ARG A:114 , ASN A:115 , ARG A:116 , GLY A:118 , PRO A:138 , HOH A:909 , HOH A:951	BINDING SITE FOR RESIDUE GOL A 901
2	AC2	SOFTWARE	LEU C:80 , ASP C:110 , SER C:112 , ARG C:114 , ASN C:115 , ARG C:116 , GLY C:118 , PRO C:138 , HOH C:911 , HOH C:926	BINDING SITE FOR RESIDUE GOL C 902
3	AC3	SOFTWARE	VAL B:341 , ASP B:342 , SER B:343 , LEU B:366 , ASN B:371 , HOH B:929 , HOH B:932 , VAL D:437 , HOH D:538	BINDING SITE FOR RESIDUE GOL B 903

(no "SS Bond" information available for 1Q40)

(no "Cis Peptide Bond" information available for 1Q40)

(no "SAP(SNP)/Variant" information available for 1Q40)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	NTF2_DOMAIN	PS50177	Nuclear transport factor 2 domain profile.	MEX67_CANAL	309-499	2	B:308-498 D:308-498

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	NTF2_DOMAIN	PS50177	Nuclear transport factor 2 domain profile.	MEX67_CANAL	309-499	1	B:308-498 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	NTF2_DOMAIN	PS50177	Nuclear transport factor 2 domain profile.	MEX67_CANAL	309-499	1	- D:308-498

Biological Unit 3 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	NTF2_DOMAIN	PS50177	Nuclear transport factor 2 domain profile.	MEX67_CANAL	309-499	2	B:308-498 D:308-498

(no "Exon" information available for 1Q40)

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:165
 aligned with MTR2_CANAX | P84148 from UniProtKB/Swiss-Prot  Length:181

    Alignment length:174
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172    
           MTR2_CANAX     3 QDPTQQLEPFLKRFLASLDLLYTQPTSQPFPNVESYATQLGSNLKRSSAIIVNGQPIIPSPQEDCKLQFQKKWLQTPLSSHQLTSYDGHLIPGTGTFVVHFSAKVRFDQSGRNRLGESADLFQENNSIVSKTNQRPIWGSWFGVDVNLVVDENVMQDGEIINSMDYRFTYVPND 176
               SCOP domains d1q40a_ A: mRNA transpor  t regulator MTR2                                                                                                                                     SCOP domains
               CATH domains 1q40A00 A:3-176  [code=3  .10.450.50, no name defined]                                                                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhh.....--.....hhhhhhh.....eeeeeeeee..ee.......hhhhhhhhhhh....eeeeeeeeeeeee....eeeeeeeeeeee..................-------.........eeeeeeeeee.........eeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1q40 A   3 QDPTQQLEPFLKRFLASLDLLYTQ--SQPFPNVESYATQLGSNLKRSSAIIVNGQPIIPSPQEDCKLQFQKKWLQTPLSSHQLTSYDGHLIPGTGTFVVHFSAKVRFDQSGRNRLGESADLFQEN-------NQRPIWGSWFGVDVNLVVDENVmQDGEIINSmDYRFTYVPND 176
                                    12        22   |  | 32        42        52        62        72        82        92       102       112       122    |    -  |    142       152    |  162   |   172    
                                                  26 29                                                                                               127     135                   157-MSE  166-MSE

Chain B from PDB  Type:PROTEIN  Length:186
 aligned with MEX67_CANAL | P84149 from UniProtKB/Swiss-Prot  Length:617

    Alignment length:205
                                   315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505     
          MEX67_CANAL   306 SRNLATNFIANYLKLWDANRSELMILYQNESQFSMQVDSSHPHLIESGNSGYSGSTDFGYYLNNSRNLTRVSSIKARMAKLSIGQEQIYKSFQQLPKTRHDIIATPELFSMEVYKFPTLNGIMITLHGSFDEVAQPEVDGSASSAPSGPRGGSRYHSGPKHKRIPLSKKSFDRTFVVIPGPNGSMIVASDTLLIRPYTSDFPWKV 510
               SCOP domains d1q40b_ B: NTF2-like domain of mRNA export fac      tor MEX67                                                                                                                                                 SCOP domains
               CATH domains 1q40B00 B:305-509  [code=3.10.450.50, no name       defined]                                                                                                                                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee.........------....................hhhhhhhh.eehhhhhhhhhhh..eee.....hhhhheeeeee......eeeeeeeeeeeee........----------................eeeeeeeeee..---..eeeeeeeeeee......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---NTF2_DOMAIN  PDB: B:308-498 UniProt: 309-499                                                                                                                                                   ----------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1q40 B 305 SRNLATNFIANYLKLWDANRSELmILYQNESQFSmQVDSSHPHLIE------SGSTDFGYYLNNSRNLTRVSSIKARmAKLSIGQEQIYKSFQQLPKTRHDIIATPELFSmEVYKFPTLNGImITLHGSFDEVAQPEVDGSA----------SRYHSGPKHKRIPLSKKSFDRTFVVIPG---SmIVASDTLLIRPYTSDFPWKV 509
                                   314       324   |   334    |  344     |   -  |    364       374       384       394       404       414|      424  |    434       444 |       -  |    464       474       484   ||  494       504     
                                                 328-MSE    339-MSE    350    357                      382-MSE                          415-MSE     427-MSE            446        457                        484 488|                    
                                                                                                                                                                                                                  489-MSE

Chain C from PDB  Type:PROTEIN  Length:164
 aligned with MTR2_CANAX | P84148 from UniProtKB/Swiss-Prot  Length:181

    Alignment length:174
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172    
           MTR2_CANAX     3 QDPTQQLEPFLKRFLASLDLLYTQPTSQPFPNVESYATQLGSNLKRSSAIIVNGQPIIPSPQEDCKLQFQKKWLQTPLSSHQLTSYDGHLIPGTGTFVVHFSAKVRFDQSGRNRLGESADLFQENNSIVSKTNQRPIWGSWFGVDVNLVVDENVMQDGEIINSMDYRFTYVPND 176
               SCOP domains d1q40c_ C: mRNA transport regulator MTR2                                                                                                                                       SCOP domains
               CATH domains 1q40C00 C:3-176  [code=3.10.450.50, no name defined]                                                                                                                           CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhh............hhhhhhh.....eeeeeeeee..ee.......hhhhhhhhhhhh...eeeeeeeeeeeee....eeeeeeeeeeee................----------........eeeeeeeeee.........eeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1q40 C   3 QDPTQQLEPFLKRFLASLDLLYTQPTSQPFPNVESYATQLGSNLKRSSAIIVNGQPIIPSPQEDCKLQFQKKWLQTPLSSHQLTSYDGHLIPGTGTFVVHFSAKVRFDQSGRNRLGESADLFQ----------QRPIWGSWFGVDVNLVVDENVmQDGEIINSmDYRFTYVPND 176
                                    12        22        32        42        52        62        72        82        92       102       112       122  |      -   |   142       152    |  162   |   172    
                                                                                                                                                    125        136                  157-MSE  166-MSE

Chain D from PDB  Type:PROTEIN  Length:175
 aligned with MEX67_CANAL | P84149 from UniProtKB/Swiss-Prot  Length:617

    Alignment length:205
                                   314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504     
          MEX67_CANAL   305 DSRNLATNFIANYLKLWDANRSELMILYQNESQFSMQVDSSHPHLIESGNSGYSGSTDFGYYLNNSRNLTRVSSIKARMAKLSIGQEQIYKSFQQLPKTRHDIIATPELFSMEVYKFPTLNGIMITLHGSFDEVAQPEVDGSASSAPSGPRGGSRYHSGPKHKRIPLSKKSFDRTFVVIPGPNGSMIVASDTLLIRPYTSDFPWK 509
               SCOP domains d1q40d_ D: NTF2-like domain of mRNA export fa        ctor MEX67                                                                                                                                               SCOP domains
               CATH domains 1q40D00 D:304-508  [code=3.10.450.50, no name         defined]                                                                                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhh....eeeeee.......--------.....hhhhhh.........hhhhhhhh.eehhhhhhhhhhh..eee.....hhhhheeeeeeehhhheeeeeeeeeeeeee.......--------------------.......eeeeeeeeeee..--.eeeeeeeeeeee........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----NTF2_DOMAIN  PDB: D:308-498 UniProt: 309-499                                                                                                                                                   ---------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1q40 D 304 DSRNLATNFIANYLKLWDANRSELmILYQNESQFSmQVDSSHPHL--------SGSTDFGYYLNNSRNLTRVSSIKARmAKLSIGQEQIYKSFQQLPKTRHDIIATPELFSmEVYKFPTLNGImITLHGSFDEVAQPEVDGS--------------------KRIPLSKKSFDRTFVVIPGP--SmIVASDTLLIRPYTSDFPWK 508
                                   313       323    |  333     | 343    |    -   |   363       373       383       393       403       413 |     423   |   433       443 |       -         -  |    473       483 |  || 493       503     
                                                  328-MSE    339-MSE  348      357                      382-MSE                          415-MSE     427-MSE           445                  466                485  ||                   
                                                                                                                                                                                                                  488|                   
                                                                                                                                                                                                                   489-MSE

Legend:		→ Mismatch	(orange background)
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	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: Alpha and beta proteins (a+b) (23004)

Fold: Cystatin-like (403)

Superfamily: NTF2-like (231)

Family: NTF2-like (25)

Protein domain: mRNA transport regulator MTR2 (3)

Yeast (Candida albicans) [TaxId: 5476] (2)

1a	d1q40a_	A:
1b	d1q40c_	C:

Protein domain: NTF2-like domain of mRNA export factor MEX67 (2)

Yeast (Candida albicans) [TaxId: 5476] (1)

2a	d1q40b_	B:
2b	d1q40d_	D:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Roll (3276)

Topology: Nuclear Transport Factor 2; Chain: A, (517)

Homologous Superfamily: [code=3.10.450.50, no name defined] (113)

Candida albicans. Organism_taxid: 5476. (2)

1a	1q40C00	C:3-176
1b	1q40A00	A:3-176
1c	1q40D00	D:304-508
1d	1q40B00	B:305-509

(no "Pfam Domain" information available for 1Q40)

Asymmetric Unit(hide GO term definitions)

Chain A,C (MTR2_CANAX | P84148)

biological process
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

Chain B,D (MEX67_CANAL | P84149)

biological process
	GO:0051028	mRNA transport	The directed movement of mRNA, messenger ribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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	1q40
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	MTR2_CANAX \| P84148	:	1q42

Description

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