5HBB - JenaLib

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Biological Unit 3 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF SHAFT PILIN SPAA FROM LACTOBACILLUS RHAMNOSUS GG - E139A MUTANT

Authors :   P. Chaurasia, S. Pratap, I. Von Ossowski, A. Palva, V. Krishnan

Date :   31 Dec 15 (Deposition) - 20 Jul 16 (Release) - 20 Jul 16 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.47

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

Keywords :   Pilin, Spaa, Probiotic, Isopeptide, Spacba Pili, Adhesin, Cell Adhesion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Chaurasia, S. Pratap, I. Von Ossowski, A. Palva, V. Krishnan
New Insights About Pilus Formation In Gut-Adapted Lactobacillus Rhamnosus Gg From The Crystal Structure Of Th Spaa Backbone-Pilin Subunit
Sci Rep V. 6 28664 2016
PubMed-ID: 27349405 | Reference-DOI: 10.1038/SREP28664

Molecule 1 - CELL SURFACE PROTEIN SPAA
	Atcc	:	53103
	Chains	:	B, A, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)/PLYSS
	Expression System Taxid	:	562
	Fragment	:	UNP RESIDUES 35-302
	Gene	:	LRHM_0426
	Mutation	:	YES
	Organism Scientific	:	LACTOBACILLUS RHAMNOSUS GG
	Organism Taxid	:	568703
	Strain	:	GG

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 23)

No.	Name	Count	Type	Full Name
1	EDO	3	Ligand/Ion	1,2-ETHANEDIOL
2	NA	17	Ligand/Ion	SODIUM ION
3	SCN	3	Ligand/Ion	THIOCYANATE ION

Biological Unit 1 (2, 2)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
2	NA	-1	Ligand/Ion	SODIUM ION
3	SCN	1	Ligand/Ion	THIOCYANATE ION

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
2	NA	-1	Ligand/Ion	SODIUM ION
3	SCN	1	Ligand/Ion	THIOCYANATE ION

Biological Unit 3 (2, 2)

No.	Name	Count	Type	Full Name
1	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
2	NA	-1	Ligand/Ion	SODIUM ION
3	SCN	1	Ligand/Ion	THIOCYANATE ION

Asymmetric Unit (23, 23)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	LEU B:73 , VAL B:76 , PRO B:142 , ARG B:143 , SER B:149 , ASN B:172	binding site for residue SCN B 401
02	AC2	SOFTWARE	GLY B:221 , GLU B:222 , GLY B:223 , PHE B:245 , THR B:246	binding site for residue NA B 402
03	AC3	SOFTWARE	GLY B:75 , ASN B:141 , PRO B:142 , ASN B:231 , ARG B:233	binding site for residue NA B 403
04	AC4	SOFTWARE	ASN B:82 , ALA B:85 , ASN B:86 , ALA B:101 , HOH B:525 , ALA C:162	binding site for residue NA B 404
05	AC5	SOFTWARE	PHE B:78 , THR B:79 , THR B:140 , HOH B:583	binding site for residue NA B 405
06	AC6	SOFTWARE	ALA B:139 , SER B:149 , ASP B:151	binding site for residue NA B 406
07	AC7	SOFTWARE	PRO A:302 , TYR B:169 , HOH B:509	binding site for residue EDO B 407
08	AC8	SOFTWARE	LEU A:73 , VAL A:76 , PRO A:142 , ARG A:143 , SER A:149 , ASN A:172	binding site for residue SCN A 401
09	AC9	SOFTWARE	GLY A:221 , GLU A:222 , GLY A:223 , ILE A:225 , PHE A:245 , THR A:246	binding site for residue NA A 402
10	AD1	SOFTWARE	GLY A:75 , ASN A:141 , PRO A:142 , ASN A:231 , ARG A:233	binding site for residue NA A 403
11	AD2	SOFTWARE	PHE A:78 , THR A:79 , THR A:140 , HOH A:559	binding site for residue NA A 404
12	AD3	SOFTWARE	ASP A:186 , THR A:189 , LYS B:129 , THR B:130	binding site for residue NA B 408
13	AD4	SOFTWARE	ALA A:139 , SER A:149 , ASP A:151	binding site for residue NA A 405
14	AD5	SOFTWARE	THR A:108 , ASN A:110 , GLN A:114 , HOH A:583	binding site for residue NA A 406
15	AD6	SOFTWARE	ASN A:82 , VAL A:83 , ALA A:85 , ASN A:86 , ALA A:101 , HOH A:568	binding site for residue NA A 407
16	AD7	SOFTWARE	ARG A:59 , TYR A:167 , VAL A:168 , TYR A:169 , HOH A:564 , PRO C:302	binding site for residue EDO A 408
17	AD8	SOFTWARE	LEU C:73 , VAL C:76 , PRO C:142 , ARG C:143 , SER C:149 , ASN C:172	binding site for residue SCN C 401
18	AD9	SOFTWARE	GLY C:221 , GLU C:222 , GLY C:223 , PHE C:245 , THR C:246	binding site for residue NA C 402
19	AE1	SOFTWARE	GLY C:75 , ASN C:141 , PRO C:142 , ASN C:231 , ARG C:233	binding site for residue NA C 403
20	AE2	SOFTWARE	ASP B:186 , THR B:189 , LYS C:129 , THR C:130	binding site for residue NA C 404
21	AE3	SOFTWARE	ALA C:139 , SER C:149 , ASP C:151	binding site for residue NA C 405
22	AE4	SOFTWARE	THR C:108 , GLN C:114 , HOH C:561	binding site for residue NA C 406
23	AE5	SOFTWARE	PRO B:302 , TYR C:169 , HOH C:509	binding site for residue EDO C 407

(no "SS Bond" information available for 5HBB)

Asymmetric Unit

No.	Residues
1	Asp B:68	-	Gly B:69
2	Leu B:156	-	Pro B:157
3	Leu A:156	-	Pro A:157
4	Asp C:68	-	Gly C:69
5	Leu C:156	-	Pro C:157

(no "SAP(SNP)/Variant" information available for 5HBB)

(no "PROSITE Motif" information available for 5HBB)

(no "Exon" information available for 5HBB)

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:265
                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee.ee.....................ee....eeeeeehhhhhhhhhhhh........eeeeee.....eeeeeee.eee.....eee.eeeeeeee..........eeee..........eee.........eeeeeeeee..........eeeee.....eeeee............eehhhhhh.eeeeehhhhh..ee.....eeeeeee.....eeeeeeee..........eeee....eeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hbb A  38 TTTQNVVLTKYGFDKDVTAIDRATDQIWTGDGAKPLQGVDFTIYNVTANYWASPKDYKGSFDSAPVAATGTTNDKGQLTQALPIQSKDASGKTRAAVYLFHATNPRAGYNTSADFWLTLPAKAAADGNVYVYPKNVQKTTYERTFVKKDAETKEVLEGAGFKISNSDGKFLKLTDKDGQSVSIGEGFIDVLANNYRLTWVAESDATVFTSDKSGKFGLNGFADNTTTYTAVETNVPDGYDAAANTDFKADNSSSDILDAPSGILP 302
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297

Chain B from PDB  Type:PROTEIN  Length:264
                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee.ee.....................ee....eeeeeehhhhhhhhhhhh........eeeeee.....eeeeeee.eee.....eee.eeeeeeee..........eeee..........eee.........eeeeeeeee..........eeeee.....eeeee...........eeehhhhhh.eeeeehhhhh..ee.....eeeeeee.....eeeeeeee..........eeee....eeeeee....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5hbb B  39 TTQNVVLTKYGFDKDVTAIDRATDQIWTGDGAKPLQGVDFTIYNVTANYWASPKDYKGSFDSAPVAATGTTNDKGQLTQALPIQSKDASGKTRAAVYLFHATNPRAGYNTSADFWLTLPAKAAADGNVYVYPKNVQKTTYERTFVKKDAETKEVLEGAGFKISNSDGKFLKLTDKDGQSVSIGEGFIDVLANNYRLTWVAESDATVFTSDKSGKFGLNGFADNTTTYTAVETNVPDGYDAAANTDFKADNSSSDILDAPSGILP 302
                                    48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298

Chain C from PDB  Type:PROTEIN  Length:267
                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee.ee.....................ee....eeeeeehhhhhhhhhhhh........eeeeee.....eeeeeee.eee.....eee.eeeeeeee..........eeee..........eee.........eeeeeeeee..........eeeee.....eeeee............eehhhhhh.eeeeehhhhh..ee.....eeeeeee.....eeeeeeee..........eeee....eeeeee......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5hbb C  38 TTTQNVVLTKYGFDKDVTAIDRATDQIWTGDGAKPLQGVDFTIYNVTANYWASPKDYKGSFDSAPVAATGTTNDKGQLTQALPIQSKDASGKTRAAVYLFHATNPRAGYNTSADFWLTLPAKAAADGNVYVYPKNVQKTTYERTFVKKDAETKEVLEGAGFKISNSDGKFLKLTDKDGQSVSIGEGFIDVLANNYRLTWVAESDATVFTSDKSGKFGLNGFADNTTTYTAVETNVPDGYDAAANTDFKADNSSSDILDAPSGILPLE 304
                                    47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297

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 '\|'

(no "SCOP Domain" information available for 5HBB)

(no "CATH Domain" information available for 5HBB)

(no "Pfam Domain" information available for 5HBB)

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Asymmetric Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
		Asp B:68 - Gly B:69	[ RasMol ]
		Asp C:68 - Gly C:69	[ RasMol ]
		Leu A:156 - Pro A:157	[ RasMol ]
		Leu B:156 - Pro B:157	[ RasMol ]
		Leu C:156 - Pro C:157	[ RasMol ]

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	C7T9P4_LACRG \| C7T9P4	:	5f44 5faa 5fgr 5fgs 5fie 5hdl 5hts 5j4m

5f44	5F44 CONTAINS WT PROTEIN.
5faa	5FAA CONTAINS C-TERMINAL DOMAIN OF SAME PROTEIN IN I422 SPACE GROUP
5fgr	5FGR CONTAINS C-TERMINAL DOMAIN OF SAME PROTEIN IN P21212 SPACE GROUP WITH YB IONS
5fgs	5FGS CONTAINS C-TERMINAL DOMAIN OF SAME PROTEIN IN P21212 SPACE GROUP WITH ZN IONS
5fie	5FIE CONTAINS N-TERMINAL DOMAIN OF THE SAME PROTEIN.
5hdl	5HDL CONTAINS E269A MUTANT OF THE SAME PROTEIN.
5hts	5HTS CONTAINS D295N MUTANT OF THE SAME PROTEIN.
5j4m	5J4M CONTAINS E269A/D295N MUTANT OF THE SAME PROTEIN.

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 23)

Sites (23, 23)

SS Bonds (0, 0)

Cis Peptide Bonds (5, 5)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (2, 2)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

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