1SPP - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Title :   THE CRYSTAL STRUCTURES OF TWO MEMBERS OF THE SPERMADHESIN FAMILY REVEAL THE FOLDING OF THE CUB DOMAIN

Authors :   A. Romero, M. J. Romao, P. F. Varela, I. Kolln, J. M. Dias, A. L. Carvalho, L. Sanz, E. Topfer-Petersen, J. J. Calvete

Date :   19 Jun 97 (Deposition) - 24 Jun 98 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

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

Keywords :   Seminal Plasma Proteins, Spermadhesins, Cub Domain Architecture, Complex (Seminal Plasma Protein/Spp) (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Romero, M. J. Romao, P. F. Varela, I. Kolln, J. M. Dias, A. L. Carvalho, L. Sanz, E. Topfer-Petersen, J. J. Calvete
The Crystal Structures Of Two Spermadhesins Reveal The Cub Domain Fold.
Nat. Struct. Biol. V. 4 783 1997
PubMed-ID: 9334740 | Reference-DOI: 10.1038/NSB1097-783
(for further references see the PDB file header)

Molecule 1 - MAJOR SEMINAL PLASMA GLYCOPROTEIN PSP-I
	Chains	:	A
	Organ	:	PLASMA
	Organism Common	:	PIG
	Organism Scientific	:	SUS SCROFA
	Organism Taxid	:	9823
	Tissue	:	SPERM

Molecule 2 - MAJOR SEMINAL PLASMA GLYCOPROTEIN PSP-II
	Chains	:	B
	Organ	:	PLASMA
	Organism Common	:	PIG
	Organism Scientific	:	SUS SCROFA
	Organism Taxid	:	9823
	Tissue	:	SPERM

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1SPP)

(no "Site" information available for 1SPP)

Asymmetric/Biological Unit

No.	Residues
1	A:9	-	A:30
2	A:53	-	A:74
3	B:9	-	B:30
4	B:53	-	B:74

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

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

Asymmetric/Biological Unit (3, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CUB	PS01180	CUB domain profile.	PSP1_PIG	30-130	1	A:9-110
1	CUB	PS01180	CUB domain profile.	PSP2_PIG	30-131	1	B:9-110
2	SPERMADHESIN_1	PS00985	Spermadhesins family signature 1.	PSP1_PIG	30-54	1	A:9-33
2	SPERMADHESIN_1	PS00985	Spermadhesins family signature 1.	PSP2_PIG	30-54	1	B:9-33
3	SPERMADHESIN_2	PS00986	Spermadhesins family signature 2.	PSP1_PIG	74-95	1	A:53-74
3	SPERMADHESIN_2	PS00986	Spermadhesins family signature 2.	PSP2_PIG	74-95	1	B:53-74

(no "Exon" information available for 1SPP)

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
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Chain A from PDB  Type:PROTEIN  Length:109
 aligned with PSP1_PIG | P35495 from UniProtKB/Swiss-Prot  Length:133

    Alignment length:109
                                    34        44        54        64        74        84        94       104       114       124         
             PSP1_PIG    25 LDYHACGGRLTDDYGTIFTYKGPKTECVWTLQVDPKYKLLVSIPTLNLTCGKEYVEILEGAPGSKSLGKFCEGLSILNRGSSGMTVKYKRDSGHPASPYEIIFLRDSQG 133
               SCOP domains d1sppa_ A: Major seminal plasma glycoprotein PSP-I                                                            SCOP domains
               CATH domains 1sppA00 A:4-113  [code=2.60.120.290, no name defined]                                                         CATH domains
               Pfam domains -----CUB-1sppA01 A:9-107                                                                               ------ Pfam domains
         Sec.struct. author .......eeee..eeeee.......eeeeeee.....eeeeeee........eeeeee.......eeeee....eeeeee....eeeeee.........eeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) -----CUB  PDB: A:9-110 UniProt: 30-130                                                                    --- PROSITE (2)
                PROSITE (3) -----SPERMADHESIN_1           ------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) -------------------------------------------------SPERMADHESIN_2        -------------------------------------- PROSITE (4)
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 1spp A   4 LDYHACGGRLTDDYGTIFTYKGPKTECVWTLQVDPKYKLLVSIPTLNLTCGKEYVEVLEGAPGSKSLGKFCEGLSILNRGSSGMTVKYKRDSGHPASPYEIIFLRDSQG 113
                                    13        23        33        43        53        63        73        83 ||     94       104         
                                                                                                            85|                          
                                                                                                             87

Chain B from PDB  Type:PROTEIN  Length:112
 aligned with PSP2_PIG | P35496 from UniProtKB/Swiss-Prot  Length:137

    Alignment length:112
                                    31        41        51        61        71        81        91       101       111       121       131  
             PSP2_PIG    22 ARINGPDECGRVIKDTSGSISNTDRQKNLCTWTILMKPDQKVRMAIPYLNLACGKEYVEVFDGLLSGPSYGKLCAGAAIVFLSTANTMTIKYNRISGNSSSPFLIYFYGSSP 133
               SCOP domains d1sppb_ B: Major seminal plasma glycoprotein PSP-II                                                              SCOP domains
               CATH domains 1sppB00 B:1-112  [code=2.60.120.290, no name defined]                                                            CATH domains
               Pfam domains --------CUB-1sppB01 B:9-107                                                                                ----- Pfam domains
         Sec.struct. author .eeehhhh..eee...eeeee.......eeeeeee.....eeeeee.eee.....eeeeeee.....eeeeee.eee.eeee....eeeeeeee.........eeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --------CUB  PDB: B:9-110 UniProt: 30-131                                                                     -- PROSITE (1)
                PROSITE (2) ---------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ----------------------------------------------------SPERMADHESIN_2        -------------------------------------- PROSITE (3)
                PROSITE (4) --------SPERMADHESIN_1           ------------------------------------------------------------------------------- PROSITE (4)
                 Transcript ---------------------------------------------------------------------------------------------------------------- Transcript
                 1spp B   1 ARINGPDECGRVIKDTSGSISNTDRQKNLCTWTILMKPDQKVRMAIPYLNLACGKEYVEVFDGLLSGPSYGKLCAGAAIVFLSTANTMTIKYNRISGNSSSPFLIYFYGSSP 112
                                    10        20        30        40        50        60        70        80        90       100       110

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: CUB-like (21)

Superfamily: Spermadhesin, CUB domain (10)

Family: Spermadhesin, CUB domain (9)

Protein domain: Major seminal plasma glycoprotein PSP-I (1)

Pig (Sus scrofa) [TaxId: 9823] (1)

d1sppa_

Protein domain: Major seminal plasma glycoprotein PSP-II (1)

Pig (Sus scrofa) [TaxId: 9823] (1)

d1sppb_

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Jelly Rolls (1293)

Homologous Superfamily: [code=2.60.120.290, no name defined] (10)

Pig (Sus scrofa) (1)

1a	1sppB00	B:1-112
1b	1sppA00	A:4-113

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: CUB (11)

Family: CUB (11)

Sus scrofa (Pig) (1)

1a	CUB-1sppA01	A:9-107
1b	CUB-1sppB01	B:9-107

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (PSP1_PIG | P35495)

biological process
	GO:0007338	single fertilization	The union of male and female gametes to form a zygote.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Chain B (PSP2_PIG | P35496)

biological process
	GO:0007338	single fertilization	The union of male and female gametes to form a zygote.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
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	1spp
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (4, 4)

Cis Peptide Bonds (0, 0)

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SAPs(SNPs)/Variants (0, 0)

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