1H8P - JenaLib

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Title :   BULL SEMINAL PLASMA PDC-109 FIBRONECTIN TYPE II MODULE

Authors :   D. A. Wah, C. Fernandez-Tornero, J. J. Calvete, A. Romero

Date :   14 Feb 01 (Deposition) - 12 Apr 02 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.82

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

Keywords :   Phosphorylcholine-Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. A. Wah, C. Fernandez-Tornero, L. Sanz, A. Romero, J. J. Calvete
Sperm Coating Mechanism From The 1. 8 A Crystal Structure Of Pdc-109-Phosphorylcholine Complex
Structure V. 10 505 2002
PubMed-ID: 11937055 | Reference-DOI: 10.1016/S0969-2126(02)00751-7
(for further references see the PDB file header)

Molecule 1 - SEMINAL PLASMA PROTEIN PDC-109
	Chains	:	A, B
	Fragment	:	RESIDUES 26-134
	Organism Common	:	BULL
	Organism Scientific	:	BOS TAURUS
	Organism Taxid	:	9913
	Tissue	:	SPERM

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (2x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	PC	4	Ligand/Ion	PHOSPHOCHOLINE

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	PC	-1	Ligand/Ion	PHOSPHOCHOLINE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:87 , SER A:88 , MET A:89 , TRP A:93 , TYR A:100 , TRP A:106 , TYR A:108 , HOH A:2099	BINDING SITE FOR RESIDUE PC A1110
2	AC2	SOFTWARE	TYR A:30 , ARG A:31 , HIS A:41 , GLY A:42 , TYR A:54 , TRP A:58 , HOH A:2100	BINDING SITE FOR RESIDUE PC A1111
3	AC3	SOFTWARE	TYR B:30 , GLY B:42 , TRP B:47 , TYR B:54 , LYS B:78	BINDING SITE FOR RESIDUE PC B1110
4	AC4	SOFTWARE	ARG B:33 , TYR B:75 , GLY B:87 , TRP B:93 , TYR B:100 , TRP B:106 , HOH B:2105	BINDING SITE FOR RESIDUE PC B1111

Asymmetric Unit

No.	Residues
1	A:24	-	A:48
2	A:38	-	A:61
3	A:69	-	A:94
4	A:83	-	A:109
5	B:24	-	B:48
6	B:38	-	B:61
7	B:69	-	B:94
8	B:83	-	B:109

Asymmetric Unit

No.	Residues
1	Phe A:26	-	Pro A:27
2	Phe A:71	-	Pro A:72
3	Phe B:26	-	Pro B:27
4	Phe B:71	-	Pro B:72

(no "SAP(SNP)/Variant" information available for 1H8P)

Asymmetric Unit (2, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FN2_2	PS51092	Fibronectin type-II collagen-binding domain profile.	SFP1_BOVIN	44-88 89-134	2	- A:64-109 B:64-109
2	FN2_1	PS00023	Fibronectin type-II collagen-binding domain signature.	SFP1_BOVIN	49-86 94-134	4	A:24-61 B:24-61 A:69-109 B:69-109

Biological Unit 1 (2, 12)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	FN2_2	PS51092	Fibronectin type-II collagen-binding domain profile.	SFP1_BOVIN	44-88 89-134	4	- A:64-109 B:64-109
2	FN2_1	PS00023	Fibronectin type-II collagen-binding domain signature.	SFP1_BOVIN	49-86 94-134	8	A:24-61 B:24-61 A:69-109 B:69-109

(no "Exon" information available for 1H8P)

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)
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Chain A from PDB  Type:PROTEIN  Length:88
 aligned with SFP1_BOVIN | P02784 from UniProtKB/Swiss-Prot  Length:134

    Alignment length:88
                                    56        66        76        86        96       106       116       126        
           SFP1_BOVIN    47 EECVFPFVYRNRKHFDCTVHGSLFPWCSLDADYVGRWKYCAQRDYAKCVFPFIYGGKKYETCTKIGSMWMSWCSLSPNYDKDRAWKYC 134
               SCOP domains d1h8pa1 A:22-67                               d1h8pa2 A:68-109                           SCOP domains
               CATH domains 1h8pA01 A:22-61                         ----1h8pA02 A:66-109                             CATH domains
               Pfam domains ---------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee..eee...........eee........eee.hhhhh......eee..eee............eee...hhhhhh.eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) FN2_2  PDB: - UniProt: 44-88              FN2_2  PDB: A:64-109 UniProt: 89-134           PROSITE (1)
                PROSITE (2) --FN2_1  PDB: A:24-61 UniProt: 49-86    -------FN2_1  PDB: A:69-109 UniProt: 94-134      PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------- Transcript
                 1h8p A  22 EECVFPFVYRNRKHFDCTVHGSLFPWCSLDADYVGRWKYCAQRDYAKCVFPFIYGGKKYETCTKIGSMWMSWCSLSPNYDKDRAWKYC 109
                                    31        41        51        61        71        81        91       101

Chain B from PDB  Type:PROTEIN  Length:88
 aligned with SFP1_BOVIN | P02784 from UniProtKB/Swiss-Prot  Length:134

    Alignment length:88
                                    56        66        76        86        96       106       116       126        
           SFP1_BOVIN    47 EECVFPFVYRNRKHFDCTVHGSLFPWCSLDADYVGRWKYCAQRDYAKCVFPFIYGGKKYETCTKIGSMWMSWCSLSPNYDKDRAWKYC 134
               SCOP domains d1h8pb1 B:22-67                               d1h8pb2 B:68-109                           SCOP domains
               CATH domains 1h8pB01 B:22-61                         ----1h8pB02 B:66-109                             CATH domains
               Pfam domains ---------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee..eee...........eee........eee.hhhhh......eee..eee............eee...hhhhhh.eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) FN2_2  PDB: - UniProt: 44-88              FN2_2  PDB: B:64-109 UniProt: 89-134           PROSITE (1)
                PROSITE (2) --FN2_1  PDB: B:24-61 UniProt: 49-86    -------FN2_1  PDB: B:69-109 UniProt: 94-134      PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------- Transcript
                 1h8p B  22 EECVFPFVYRNRKHFDCTVHGSLFPWCSLDADYVGRWKYCAQRDYAKCVFPFIYGGKKYETCTKIGSMWMSWCSLSPNYDKDRAWKYC 109
                                    31        41        51        61        71        81        91       101

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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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(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

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Organisms( (-)

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Class: Small proteins (3458)

Fold: Kringle-like (68)

Superfamily: Kringle-like (68)

Family: Fibronectin type II module (13)

Protein domain: PDC-109, collagen-binding type II domain (2)

Cow (Bos taurus) [TaxId: 9913] (2)

1a	d1h8pa1	A:22-67
1b	d1h8pa2	A:68-109
1c	d1h8pb1	B:22-67
1d	d1h8pb2	B:68-109

Asymmetric Unit

Classes(

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Architectures( (-)

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Homologous Superfamilies( (-)

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Organisms( (-)

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Class: Mainly Beta (13760)

Architecture: Ribbon (789)

Topology: Seminal Fluid Protein PDC-109 (Domain B) (33)

Homologous Superfamily: [code=2.10.10.10, no name defined] (13)

Bull (Bos taurus) (1)

1a	1h8pA02	A:66-109
1b	1h8pB02	B:66-109
1c	1h8pA01	A:22-61
1d	1h8pB01	B:22-61

(no "Pfam Domain" information available for 1H8P)

Asymmetric Unit(hide GO term definitions)

Chain A,B (SFP1_BOVIN | P02784)

biological process
	GO:0007338	single fertilization	The union of male and female gametes to form a zygote.
	GO:0048240	sperm capacitation	A process required for sperm to reach fertilization competence. Sperm undergo an incompletely understood series of morphological and molecular maturational processes, termed capacitation, involving, among other processes, protein tyrosine phosphorylation and increased intracellular calcium.
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.
	GO:0005615	extracellular space	That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.

Asymmetric Unit
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		Phe B:71 - Pro B:72	[ RasMol ]

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