3RPT - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE ANTI-HIV B12 SCAFFOLD PROTEIN

Authors :   L. Chen, P. D. Kwong

Date :   27 Apr 11 (Deposition) - 21 Dec 11 (Release) - 21 Dec 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.30

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

Keywords :   Scaffold Protein Anti-Hiv, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. L. Azoitei, B. E. Correia, Y. E. Ban, C. Carrico, O. Kalyuzhniy, L. Chen, A. Schroeter, P. S. Huang, J. S. Mclellan, P. D. Kwong, D. Baker R. K. Strong, W. R. Schief
Computation-Guided Backbone Grafting Of A Discontinuous Motif Onto A Protein Scaffold.
Science V. 334 373 2011
PubMed-ID: 22021856 | Reference-DOI: 10.1126/SCIENCE.1209368

Molecule 1 - ENDOGLUCANASE E-2
	Chains	:	X, A
	EC Number	:	3.2.1.4
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	CELB
	Organism Scientific	:	THERMOBIFIDA FUSCA
	Organism Taxid	:	2021
	Synonym	:	CELLULASE E-2, CELLULASE E2, ENDO-1,4-BETA-GLUCANASE E-2

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 1)

No.	Name	Count	Type	Full Name
1	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	SO4	-1	Ligand/Ion	SULFATE ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	SO4	1	Ligand/Ion	SULFATE ION

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:41 , ASN A:42 , HIS A:44 , GLU X:14 , ARG X:17 , ASN X:18	BINDING SITE FOR RESIDUE SO4 A 283

Asymmetric Unit

No.	Residues
1	A:220	-	A:255
2	X:220	-	X:255

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

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

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLYCOSYL_HYDROL_F6_1	PS00655	Glycosyl hydrolases family 6 signature 1.	GUN2_THEFU	102-118	2	A:70-71 X:70-71
2	GLYCOSYL_HYDROL_F6_2	PS00656	Glycosyl hydrolases family 6 signature 2.	GUN2_THEFU	142-151	2	A:103-108 X:103-108

Biological Unit 1 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLYCOSYL_HYDROL_F6_1	PS00655	Glycosyl hydrolases family 6 signature 1.	GUN2_THEFU	102-118	1	- X:70-71
2	GLYCOSYL_HYDROL_F6_2	PS00656	Glycosyl hydrolases family 6 signature 2.	GUN2_THEFU	142-151	1	- X:103-108

Biological Unit 2 (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLYCOSYL_HYDROL_F6_1	PS00655	Glycosyl hydrolases family 6 signature 1.	GUN2_THEFU	102-118	1	A:70-71 -
2	GLYCOSYL_HYDROL_F6_2	PS00656	Glycosyl hydrolases family 6 signature 2.	GUN2_THEFU	142-151	1	A:103-108 -

(no "Exon" information available for 3RPT)

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:253
 aligned with GUN2_THEFU | P26222 from UniProtKB/Swiss-Prot  Length:441

    Alignment length:287
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       
           GUN2_THEFU    33 DSPFYVNPNMSSAEWVRNNPNDPRTPVIRDRIASVPQGTWFAHHNPGQITGQVDALMSAAQAAGKIPILVVYNAPGRDCGNHSSGGAPSHSAYRSWIDEFAAGLKNRPAYIIVEPDLISLMSSCMQHVQQEVLETMAYAGKALKAGSSQARIYFDAGHSAWHSPAQMASWLQQADISNSAHGIATNTSNYRWTADEVAYAKAVLSAIGNPSLRAVIDTSRNGNGPAGNEWCDPSGRAIGTPSTTNTGDPMIDAFLWIKLPGEADGCIAGAGQFVPQAAYEMAIAAGG 319
               SCOP domains d3rpta_ A: automated matches                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhh....hhhhhhhhh......eee...---hhhhhhhhhhhhhhhhh...eeee..----------------hhhhhhhhhhhhh......eeeee...---------------hhhhhhhhhhhhhhhh..eeeeee.......hhhhhhhhhhhhhhhhhh.eeee......hhhhhhhhhhhhhhhhh....eeeee.................................eeeee..................hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------GLYCOSYL_HYDROL_F-----------------------GLYCOSYL_H------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rpt A   1 DSPFYVNPNMSSAEWVRNNPNDPRTPVIRDRIASVPQGTWHNQH---QITGQVDALMSAAQAAGKIPILVVNP----------------FEEGKQWIDEFAAGLKNRPAYIIVDPG---------------AWRFAAYAGKALKAGSSQARIYFDAGHSAWHSPAQMAAALQRADISNSAHGIATNTSNYRWTADEVAYAKAVLSAIGNPSLRAVIDTSRNGNGPAGNESCDPSGRAIGTPSTTNTGDPMIDAFLWIKLPGEADGCIAGAGQFVPQAAYEMAIAALE 276
                                    10        20        30        40   |   |50        60        70  |      -        83        93       103     |   -         - |     129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       
                                                                      44  48                       73               83                       109             121

Chain X from PDB  Type:PROTEIN  Length:252
 aligned with GUN2_THEFU | P26222 from UniProtKB/Swiss-Prot  Length:441

    Alignment length:285
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313     
           GUN2_THEFU    34 SPFYVNPNMSSAEWVRNNPNDPRTPVIRDRIASVPQGTWFAHHNPGQITGQVDALMSAAQAAGKIPILVVYNAPGRDCGNHSSGGAPSHSAYRSWIDEFAAGLKNRPAYIIVEPDLISLMSSCMQHVQQEVLETMAYAGKALKAGSSQARIYFDAGHSAWHSPAQMASWLQQADISNSAHGIATNTSNYRWTADEVAYAKAVLSAIGNPSLRAVIDTSRNGNGPAGNEWCDPSGRAIGTPSTTNTGDPMIDAFLWIKLPGEADGCIAGAGQFVPQAAYEMAIAAG 318
               SCOP domains d3rptx_ X: automated matches                                                                                                                                                                                                                                                                  SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhh....hhhhhhhhh......eee..---.hhhhhhhhhhhhhhhhh...eeee...---------------hhhhhhhhhhhhhh.....eeeee..---------------hhhhhhhhhhhhhhhhh..eeeeee.......hhhhhhhhhhhhhhhhhh.eeee......hhhhhhhhhhhhhhhhh....eeeee.................................eeeee..................hhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------GLYCOSYL_HYDROL_F-----------------------GLYCOSYL_H----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rpt X   2 SPFYVNPNMSSAEWVRNNPNDPRTPVIRDRIASVPQGTWHNQ---GQITGQVDALMSAAQAAGKIPILVVNPD---------------FEEGKQWIDEFAAGLKNRPAYIIVDP---------------AAWRFAAYAGKALKAGSSQARIYFDAGHSAWHSPAQMAAALQRADISNSAHGIATNTSNYRWTADEVAYAKAVLSAIGNPSLRAVIDTSRNGNGPAGNESCDPSGRAIGTPSTTNTGDPMIDAFLWIKLPGEADGCIAGAGQFVPQAAYEMAIAAL 275
                                    11        21        31        41 |   |  51        61        71  |      -        84        94       104   |     -       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270     
                                                                    43  47                         74              83                      108             120

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(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: 7-stranded beta/alpha barrel (137)

Superfamily: Glycosyl hydrolases family 6, cellulases (42)

Family: Glycosyl hydrolases family 6, cellulases (34)

Protein domain: automated matches (8)

Thermobifida fusca [TaxId: 2021] (1)

1a	d3rpta_	A:
1b	d3rptx_	X:

(no "CATH Domain" information available for 3RPT)

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

Asymmetric Unit(hide GO term definitions)

Chain A,X (GUN2_THEFU | P26222)

molecular function
	GO:0030246	carbohydrate binding	Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
	GO:0008810	cellulase activity	Catalysis of the endohydrolysis of (1->4)-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0016798	hydrolase activity, acting on glycosyl bonds	Catalysis of the hydrolysis of any glycosyl bond.
	GO:0004553	hydrolase activity, hydrolyzing O-glycosyl compounds	Catalysis of the hydrolysis of any O-glycosyl bond.
	GO:0030247	polysaccharide binding	Interacting selectively and non-covalently with any polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically.
biological process
	GO:0005975	carbohydrate metabolic process	The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
	GO:0030245	cellulose catabolic process	The chemical reactions and pathways resulting in the breakdown of cellulose, a linear beta1-4 glucan of molecular mass 50-400 kDa with the pyranose units in the -4C1 conformation.
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
	GO:0000272	polysaccharide catabolic process	The chemical reactions and pathways resulting in the breakdown of a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically.

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Ligands, Modified Residues, Ions (1, 1)

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SS Bonds (2, 2)

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