3CFI - 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)

Biological Unit 4 (Jmol Viewer)

Title :   NANOBODY-AIDED STRUCTURE DETERMINATION OF THE EPSI:EPSJ PSEUDOPILIN HETERDIMER FROM VIBRIO VULNIFICUS

Authors :   A. Y. Lam, E. Pardon, K. V. Korotkov, J. Steyaert, W. G. J. Hol

Date :   03 Mar 08 (Deposition) - 13 Jan 09 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.58

Chains :   Asym. Unit : A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1: A,B,C  (1x)
Biol. Unit 2: D,E,F  (1x)
Biol. Unit 3: G,H,I  (1x)
Biol. Unit 4: J,K,L  (1x)

Keywords :   General Secretory Pathway, Pseudopilins, Single Chain Antibody, Methylation, Protein Transport-Immune System Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Y. Lam, E. Pardon, K. V. Korotkov, W. G. Hol, J. Steyaert
Nanobody-Aided Structure Determination Of The Epsi:Epsj Pseudopilin Heterodimer From Vibrio Vulnificus.
J. Struct. Biol. V. 166 8 2009
PubMed-ID: 19118632 | Reference-DOI: 10.1016/J.JSB.2008.11.008

Molecule 1 - TYPE II SECRETORY PATHWAY, PSEUDOPILIN EPSI
	Chains	:	A, D, G, J
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PCDF-NT
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 61-144
	Gene	:	EPSI
	Organism Scientific	:	VIBRIO VULNIFICUS
	Organism Taxid	:	672

Molecule 2 - TYPE II SECRETORY PATHWAY, PSEUDOPILIN EPSJ
	Chains	:	B, E, H, K
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PCDF-NT
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP ENTRIES 47-210
	Gene	:	EPSJ
	Organism Scientific	:	VIBRIO VULNIFICUS
	Organism Taxid	:	672
	Synonym	:	TYPE II SECRETORY PATHWAY, COMPONENT EPSJ

Molecule 3 - NANOBODY NBEPSIJ_11
	Chains	:	C, F, I, L
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PHEN6
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	NBEPSIJ_11
	Organism Scientific	:	LAMA GLAMA
	Organism Taxid	:	9844

		1	2	3	4	5	6	7	8	9	10	11	12
Asymmetric Unit	:	A	B	C	D	E	F	G	H	I	J	K	L
Biological Unit 1 (1x)	:	A	B	C
Biological Unit 2 (1x)	:				D	E	F
Biological Unit 3 (1x)	:							G	H	I
Biological Unit 4 (1x)	:										J	K	L

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	CL	4	Ligand/Ion	CHLORIDE ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION

Biological Unit 3 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION

Biological Unit 4 (0, 0)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TRP K:96 , HIS K:97	BINDING SITE FOR RESIDUE CL K 1
2	AC2	SOFTWARE	TRP E:96	BINDING SITE FOR RESIDUE CL E 1
3	AC3	SOFTWARE	TRP B:96 , HIS B:97	BINDING SITE FOR RESIDUE CL B 1
4	AC4	SOFTWARE	ARG H:93 , TRP H:96 , HIS H:97	BINDING SITE FOR RESIDUE CL H 1

Asymmetric Unit

No.	Residues
1	C:22	-	C:95
2	F:22	-	F:95
3	I:22	-	I:95
4	L:22	-	L:95

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

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

(no "PROSITE Motif" information available for 3CFI)

(no "Exon" information available for 3CFI)

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:76
 aligned with Q7MPZ1_VIBVY | Q7MPZ1 from UniProtKB/TrEMBL  Length:144

    Alignment length:78
                                    75        85        95       105       115       125       135        
         Q7MPZ1_VIBVY    66 YLEQKMFAAMVADNQMAMVMLNPKNLKASNGEEELAGQTWYWKVAPVATTQPLLKAFDVSVAAEKQASPIITVRSYVA 143
               SCOP domains d3cfia_ A: Pseudopilin  EpsI                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh..-......eeeeee..eeeeeeeee.......-.eeeeeee........eeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------ Transcript
                 3cfi A  33 YLEQKMFAAMVADNQMAMVMLN-KNLKASNGEEELAGQTWYWKVAPVATTQPL-KAFDVSVAAEKQASPIITVRSYVA 110
                                    42        52 | |    62        72        82  | |   92       102        
                                                54 |                           85 |                       
                                                  56                             87

Chain B from PDB  Type:PROTEIN  Length:160
 aligned with Q7MPZ0_VIBVY | Q7MPZ0 from UniProtKB/TrEMBL  Length:233

    Alignment length:162
                                    57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207  
         Q7MPZ0_VIBVY    48 ELSQERTARLNELQRALVMMDSDFRQIALRQTRTNGEEPSKKLLHWADYLLDSDSKGIMFARLGWHNPQQQFPRGEVTKVGYRIKDERLERVWWRYPDTPAGQEGVVTPLLSDVEELNVRFYDGKQWINEWSNELALPAAISVELTLKDYGKIARTYLTPEG 209
               SCOP domains d3cfib_ B: Type II secretory pathway   component EpsJ                                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhh.......ee....--.ee.eeeee.hhh...eeeeeeeee...........eeeeeeeeee..eeeeeee...........eeeeee..eeeeeeeee....ee...........eeeeeeee...eeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3cfi B  32 ELSQERTARLNELQRALVMMDSDFRQIALRQTRTNGE--SKKLLHWADYLLDSDNKGIMFARLGWHNPQQQFPRGEVTKVGYRIKDERLERVWWRYPDTPAGQEGVVTPLLSDVEELNVRFYDGKQWINEWSNELTLPAAISVELTLKDYGKIARTYLTPEG 193
                                    41        51        61      | 71        81        91       101       111       121       131       141       151       161       171       181       191  
                                                               68 71

Chain C from PDB  Type:PROTEIN  Length:115
                                                                                                                                                   
               SCOP domains d3cfic_ C: automated matches                                                                                        SCOP domains
               CATH domains 3cfiC00 C:2-116 Immunoglobulins                                                                                     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee..ee......eeeeeee....hhh..eeeeee......eeeeee.....eee.hhh...eeeeee....eeeeee....hhh.eeeeeeee............eeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------- Transcript
                 3cfi C   2 VQLQESGGGLVQPGGSLRLSCAASGFAFSGYAMSWVRQAPGKGLEWVSGINRDGSTSYTAPVKGRFTISRDNAKNILYLQMNSLRPEDTAVYYCAKWLGGRDWYDRGQGTQVTVS 116
                                    11        21        31        41        51        61        71        81        91       101       111

Chain D from PDB  Type:PROTEIN  Length:80
 aligned with Q7MPZ1_VIBVY | Q7MPZ1 from UniProtKB/TrEMBL  Length:144

    Alignment length:83
                                    70        80        90       100       110       120       130       140   
         Q7MPZ1_VIBVY    61 INTVGYLEQKMFAAMVADNQMAMVMLNPKNLKASNGEEELAGQTWYWKVAPVATTQPLLKAFDVSVAAEKQASPIITVRSYVA 143
               SCOP domains d3cfid_ D: Pseudopilin EpsI                                                         SCOP domains
               CATH domains ----------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhh...-....eeeeeee..eeeeeeeee....--....eeeeee........eeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------- Transcript
                 3cfi D  28 INTVGYLEQKMFAAMVADNQMAMVMLNP-NLKASNGEEELAGQTWYWKVAPVATT--LLKAFDVSVAAEKQASPIITVRSYVA 110
                                    37        47       |57        67        77    |  |87        97       107   
                                                      55 |                       82 85                         
                                                        57

Chain E from PDB  Type:PROTEIN  Length:158
 aligned with Q7MPZ0_VIBVY | Q7MPZ0 from UniProtKB/TrEMBL  Length:233

    Alignment length:164
                                    56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206    
         Q7MPZ0_VIBVY    47 NELSQERTARLNELQRALVMMDSDFRQIALRQTRTNGEEPSKKLLHWADYLLDSDSKGIMFARLGWHNPQQQFPRGEVTKVGYRIKDERLERVWWRYPDTPAGQEGVVTPLLSDVEELNVRFYDGKQWINEWSNELALPAAISVELTLKDYGKIARTYLTPEGN 210
               SCOP domains d3cfie_ E: Type II secretory pathway     component EpsJ                                                                                                              SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhh.......ee..----.ee.eeeee.hhh...eeeeeeeee......--...eeeeeeeeee..eeeeeee...........eeeeee..eeeeeeeee....ee...........eeeeeeee...eeeeeeee..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3cfi E  31 NELSQERTARLNELQRALVMMDSDFRQIALRQTRTN----SKKLLHWADYLLDSDNKGIMFARLGWHNPQQ--PRGEVTKVGYRIKDERLERVWWRYPDTPAGQEGVVTPLLSDVEELNVRFYDGKQWINEWSNELTLPAAISVELTLKDYGKIARTYLTPEGN 194
                                    40        50        60     |   -|       80        90       100|  |   110       120       130       140       150       160       170       180       190    
                                                              66   71                           101  |                                                                                          
                                                                                                   104

Chain F from PDB  Type:PROTEIN  Length:114
                                                                                                                                                  
               SCOP domains d3cfif_ F: automated matches                                                                                       SCOP domains
               CATH domains 3cfiF00 F:2-115 Immunoglobulins                                                                                    CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee..........eeeeeee....hhh..eeeeee......eeeeee.....eee.......eeeeee....eeeeee....hhh.eeeeeeee............eee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------ Transcript
                 3cfi F   2 VQLQESGGGLVQPGGSLRLSCAASGFAFSGYAMSWVRQAPGKGLEWVSGINRDGSTSYTAPVKGRFTISRDNAKNILYLQMNSLRPEDTAVYYCAKWLGGRDWYDRGQGTQVTV 115
                                    11        21        31        41        51        61        71        81        91       101       111

Chain G from PDB  Type:PROTEIN  Length:74
 aligned with Q7MPZ1_VIBVY | Q7MPZ1 from UniProtKB/TrEMBL  Length:144

    Alignment length:81
                                    70        80        90       100       110       120       130       140 
         Q7MPZ1_VIBVY    61 INTVGYLEQKMFAAMVADNQMAMVMLNPKNLKASNGEEELAGQTWYWKVAPVATTQPLLKAFDVSVAAEKQASPIITVRSY 141
               SCOP domains d3cfig_ G: Pseudopilin EpsI                                                       SCOP domains
               CATH domains --------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhh....-..eeeeeee..eeeeeeeee..-----...eeeeee....-...eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------- Transcript
                 3cfi G  28 INTVGYLEQKMFAAMVADNQMAMVMLNPKN-KASNGEEELAGQTWYWKVAPVA-----LKAFDVSVAAEKQ-SPIITVRSY 108
                                    37        47        57 |      67        77  |     87        97| |    107 
                                                        57 |                   80    86          98 |        
                                                          59                                      100

Chain H from PDB  Type:PROTEIN  Length:157
 aligned with Q7MPZ0_VIBVY | Q7MPZ0 from UniProtKB/TrEMBL  Length:233

    Alignment length:160
                                    57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207
         Q7MPZ0_VIBVY    48 ELSQERTARLNELQRALVMMDSDFRQIALRQTRTNGEEPSKKLLHWADYLLDSDSKGIMFARLGWHNPQQQFPRGEVTKVGYRIKDERLERVWWRYPDTPAGQEGVVTPLLSDVEELNVRFYDGKQWINEWSNELALPAAISVELTLKDYGKIARTYLTP 207
               SCOP domains d3cfih_ H: Type II secretory pathway    component EpsJ                                                                                                           SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhh.............---...eeeee.hhh...eeeeeeeee...........eeeeeeeeee..eeeeeee........ee.eeeeee..eeeeeeeee....ee...........eeeeeeee...eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3cfi H  32 ELSQERTARLNELQRALVMMDSDFRQIALRQTRTNGE---KKLLHWADYLLDSDNKGIMFARLGWHNPQQQFPRGEVTKVGYRIKDERLERVWWRYPDTPAGQEGVVTPLLSDVEELNVRFYDGKQWINEWSNELTLPAAISVELTLKDYGKIARTYLTP 191
                                    41        51        61      |  -|       81        91       101       111       121       131       141       151       161       171       181       191
                                                               68  72

Chain I from PDB  Type:PROTEIN  Length:116
                                                                                                                                                    
               SCOP domains d3cfii_ I: automated matches                                                                                         SCOP domains
               CATH domains 3cfiI00 I:1-116 Immunoglobulins                                                                                      CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eee.....eeeeeee....hhh..eeeeee......eeeeee.....eee.hhh...eeeeee....eeeeee....hhh.eeeeeeee............eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------- Transcript
                 3cfi I   1 QVQLQESGGGLVQPGGSLRLSCAASGFAFSGYAMSWVRQAPGKGLEWVSGINRDGSTSYTAPVKGRFTISRDNAKNILYLQMNSLRPEDTAVYYCAKWLGGRDWYDRGQGTQVTVS 116
                                    10        20        30        40        50        60        70        80        90       100       110

Chain J from PDB  Type:PROTEIN  Length:81
 aligned with Q7MPZ1_VIBVY | Q7MPZ1 from UniProtKB/TrEMBL  Length:144

    Alignment length:81
                                    70        80        90       100       110       120       130       140 
         Q7MPZ1_VIBVY    61 INTVGYLEQKMFAAMVADNQMAMVMLNPKNLKASNGEEELAGQTWYWKVAPVATTQPLLKAFDVSVAAEKQASPIITVRSY 141
               SCOP domains d3cfij_ J: Pseudopilin EpsI                                                       SCOP domains
               CATH domains --------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhhhhhh.........eeeeee..eeeeeeeee..........eeeeee........eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------- Transcript
                 3cfi J  28 INTVGYLEQKMFAAMVADNQMAMVMLNPKNLKASNGEEELAGQTWYWKVAPVATTQPLLKAFDVSVAAEKQASPIITVRSY 108
                                    37        47        57        67        77        87        97       107

Chain K from PDB  Type:PROTEIN  Length:153
 aligned with Q7MPZ0_VIBVY | Q7MPZ0 from UniProtKB/TrEMBL  Length:233

    Alignment length:159
                                    57        67        77        87        97       107       117       127       137       147       157       167       177       187       197         
         Q7MPZ0_VIBVY    48 ELSQERTARLNELQRALVMMDSDFRQIALRQTRTNGEEPSKKLLHWADYLLDSDSKGIMFARLGWHNPQQQFPRGEVTKVGYRIKDERLERVWWRYPDTPAGQEGVVTPLLSDVEELNVRFYDGKQWINEWSNELALPAAISVELTLKDYGKIARTYLT 206
               SCOP domains d3cfik_ K: Type II secretory pathw    ay component EpsJ                                                                                                         SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhh.......ee.----..ee.eeeee.hhh...eeeeeeeee........--.eeeeeeeeee..eeeeeee...........eeeeee..eeeeeeeee....ee...........eeeeeeee...eeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3cfi K  32 ELSQERTARLNELQRALVMMDSDFRQIALRQTRT----PSKKLLHWADYLLDSDNKGIMFARLGWHNPQQQF--GEVTKVGYRIKDERLERVWWRYPDTPAGQEGVVTPLLSDVEELNVRFYDGKQWINEWSNELTLPAAISVELTLKDYGKIARTYLT 190
                                    41        51        61   |    71        81        91       101 |  |  111       121       131       141       151       161       171       181         
                                                            65   70                              103  |                                                                                    
                                                                                                    106

Chain L from PDB  Type:PROTEIN  Length:109
                                                                                                                                             
               SCOP domains d3cfil_ L: automated matches                                                                                  SCOP domains
               CATH domains 3cfiL00 L:3-113 Immunoglobulins                                                                               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee........eeeeeee....hhh..eeeeee......eeeeee.....eee.hhh....eeeee....eeeeee....hhh..eeeeeee............ee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------- Transcript
                 3cfi L   3 QLQESGGGLPGGSLRLSCAASGFAFSGYAMSWVRQAPGKGLEWVSGINRDGSTSYTAPVKGRFTISRDNAKNILYLQMNSLRPEDTAVYYCAKWLGGRDWYDRGQGTQV 113
                                    14        24        34        44        54        64        74        84        94       104         
                                   11|                                                                                                   
                                    14

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(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Immunoglobulin-like (3897)

Homologous Superfamily: Immunoglobulins (2282)

Vibrio vulnificus. Organism_taxid: 672. (1)

1a	3cfiL00	L:3-113
1b	3cfiF00	F:2-115
1c	3cfiC00	C:2-116
1d	3cfiI00	I:1-116

(no "Pfam Domain" information available for 3CFI)

Asymmetric Unit(hide GO term definitions)

Chain A,D,G,J (Q7MPZ1_VIBVY | Q7MPZ1)

molecular function
	GO:0008565	protein transporter activity	Enables the directed movement of proteins into, out of or within a cell, or between cells.
biological process
	GO:0015628	protein secretion by the type II secretion system	The process in which proteins are secreted across the outer membrane of Gram-negative bacteria by the type II secretion system. Proteins using this pathway are first translocated across the cytoplasmic membrane via the Sec or Tat pathways.
cellular component
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0015627	type II protein secretion system complex	A large protein complex, containing 12-15 subunits, that spans the cell envelope of Gram-negative bacteria and mediates the movement of proteins into the extracellular environment. The complex includes a component in the cytoplasm, an inner membrane subcomplex that reaches into the periplasmic compartment and a secretion pore in the outer membrane. Proteins using the Type II pathway are transported across the cytoplasmic membrane by the Sec or Tat complex.

Chain B,E,H,K (Q7MPZ0_VIBVY | Q7MPZ0)

molecular function
	GO:0008565	protein transporter activity	Enables the directed movement of proteins into, out of or within a cell, or between cells.
biological process
	GO:0015628	protein secretion by the type II secretion system	The process in which proteins are secreted across the outer membrane of Gram-negative bacteria by the type II secretion system. Proteins using this pathway are first translocated across the cytoplasmic membrane via the Sec or Tat pathways.
cellular component
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0015627	type II protein secretion system complex	A large protein complex, containing 12-15 subunits, that spans the cell envelope of Gram-negative bacteria and mediates the movement of proteins into the extracellular environment. The complex includes a component in the cytoplasm, an inner membrane subcomplex that reaches into the periplasmic compartment and a secretion pore in the outer membrane. Proteins using the Type II pathway are transported across the cytoplasmic membrane by the Sec or Tat complex.

Asymmetric Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		CL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3cfi)

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]
		Biological Unit 3	[ Jena3D ]
		Biological Unit 4	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format \| Biol. Unit 3 PNG format \| Biol. Unit 4 PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	3cfi
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	Q7MPZ0_VIBVY \| Q7MPZ0
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/TrEMBL
	Q7MPZ1_VIBVY \| Q7MPZ1
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/TrEMBL

Access by Enzyme Classificator (EC Number)
	(no 'Enzyme Classificator' available)
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	Q7MPZ0_VIBVY \| Q7MPZ0
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)
	Q7MPZ1_VIBVY \| Q7MPZ1
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/TrEMBL
	Q7MPZ0_VIBVY \| Q7MPZ0	:	2ret
	Q7MPZ1_VIBVY \| Q7MPZ1	:	2ret

(no "Related Entries Specified in the PDB File" available for 3CFI)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 4)

Sites (4, 4)

SS Bonds (4, 4)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (3, 12)

CATH Domains (1, 4)

Pfam Domains (0, 0)

Gene Ontology (5, 10)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File