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Title :   CRYSTAL STRUCTURE OF A PUTATIVE ALPHA-RHAMNOSIDASE FROM BACTEROIDES THETAIOTAOMICRON

Authors :   D. Kumaran, S. K. Burley, S. Swaminathan, New York Sgx Research Center For Structural Genomics (Nysgxrc)

Date :   11 Mar 08 (Deposition) - 01 Apr 08 (Release) - 09 Jun 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.33

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

Keywords :   Structural Genomics, Protein Structure Initiative Ii, Nysgxrc, 12028B, (Alpha/Alpha)6 Barrel Domain, Beta Sandwich Domain, Glycoside, Biosurfactans, Psi-2, New York Sgx Research Center For Structural Genomics, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. Kumaran, S. K. Burley, S. Swaminathan
Crystal Structure Of A Putative Alpha-Rhamnosidase From Bacteroides Thetaiotaomicron.
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - PUTATIVE ALPHA-RHAMNOSIDASE
	Atcc	:	29148
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PSGX3(BC)
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	BT_1001
	Organism Scientific	:	BACTEROIDES THETAIOTAOMICRON VPI-5482
	Organism Taxid	:	226186
	Strain	:	VPI-5482 / DSM 2079 / NCTC 10582 / E50

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 28)

No.	Name	Count	Type	Full Name
1	EDO	3	Ligand/Ion	1,2-ETHANEDIOL
2	MSE	24	Mod. Amino Acid	SELENOMETHIONINE
3	TRS	1	Ligand/Ion	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

Biological Unit 1 (3, 56)

No.	Name	Count	Type	Full Name
1	EDO	6	Ligand/Ion	1,2-ETHANEDIOL
2	MSE	48	Mod. Amino Acid	SELENOMETHIONINE
3	TRS	2	Ligand/Ion	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:332 , ARG A:336 , TRP A:341 , ASP A:344 , TYR A:385 , TRP A:442 , GLU A:597 , TYR A:612 , HIS A:622 , TRP A:624 , HOH A:859	BINDING SITE FOR RESIDUE TRS A 800
2	AC2	SOFTWARE	THR A:80 , TRP A:111 , ASN A:112 , GLN A:113	BINDING SITE FOR RESIDUE EDO A 801
3	AC3	SOFTWARE	ARG A:403 , ASN A:500 , LYS A:503 , GLN A:515 , SER A:516 , ASP A:517	BINDING SITE FOR RESIDUE EDO A 802
4	AC4	SOFTWARE	ILE A:346 , ASP A:395 , PHE A:530 , HOH A:1142	BINDING SITE FOR RESIDUE EDO A 803

(no "SS Bond" information available for 3CIH)

Asymmetric Unit

No.	Residues
1	Asp A:373	-	Pro A:374

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

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

(no "Exon" information available for 3CIH)

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:714
 aligned with Q8A916_BACTN | Q8A916 from UniProtKB/TrEMBL  Length:729

    Alignment length:714
                                    25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505       515       525       535       545       555       565       575       585       595       605       615       625       635       645       655       665       675       685       695       705       715       725    
         Q8A916_BACTN    16 QTWIWYPGDYEIWLGNQMNNRRTERGAFFPPFWKTDSHYVVVEFSKVLNLSEPEEVFIAAEGTYNVKLDGKLQFGMPETLLLPAGKHSLNIKVWNQATPPTIYVKGKTVNSDSSWRVTYEDKEWIDESGKASDTSATIYMDAGCWNFDGATQRPSQFSLMREPQQPVAKTEQPEGGILYDFGKETFGFITLKNLSGKGKIDLYYGESPEEAKDKAYCETLDKLLLEPGQITDLAIRSTSPLHHSDNEYTLENSKAFRYVYITHEPEVQIGEVSMQYEYLPEEYRGNFRCNDEELNCIWEVGAYTMHLTTREFFIDGIKRDRWVWSGDAIQSYLMNYYLFFDSESVKRTIWLLRGKDPVTSHSNTIMDYTFYWFLSVYDYYMYSGDRHFVNQLYPRMQTMMDYVLGRTNKNGMVEGMSGDWVFVDWADGYLDKKGELSFEQVLFCRSLETMALCADLVGDKDGQQKYEKLASALKAKLEPTFWNNQKQAFVHNCVDGRQSDAVTRYANMFSVFFDYLNADKQQAIKQSVLLNDEILKITTPYMRFYELEALCALGEQETVMKEMKAYWGGMLKAGATSFWEKYNPEESGTQHLAMYGRPYGKSLCHAWGASPIYLLGKYYLGVKPTKEGYKEFAVSPVLGGLKWMEGTVPTPNGDIHVYMDNKTIKVKATEGKGYLTIQSRRQPKANMGTVEKVSEGVWRLWIDSPEERIVTYRL 729
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains 3cihA01 A:18-175 Galactose-binding domain-like                                                                                                                3cihA02 A:176-298 Galactose-binding domain-like                                                                            ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...ee..hhhhhhhhhhhhh..ee..ee............eeeeeeeeee...eeeeeeee.eeeeee..ee......eeee..eeeeeeeeee......eeeee..........eee.....................ee.ee........hhhhh..eeeee...eeee.....eeeeeeeeeeeeeeeeeeee.eeeeeeee.hhhhhhh......eeeeeee..eeee....eeee......eee....eeeeeeeeee...eeeeeeeeeeee.......eeee.hhhhhhhhhhhhhhhhhh...............hhhhhhhhhhhhhh...hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.............................eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhee....ee..eee..ee....hhhhhhhhhhh...hhhhhhhhhhhh..........hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh..............hhhhhhh...........hhhhhhhhhhhhhhh..eee.hhhh.eeee........eeeeeeee..eeeeeeee..eeeeee...eeeeeee.....ee....eeeee..eeeeee.....eeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3cih A  18 QTWIWYPGDYEIWLGNQmNNRRTERGAFFPPFWKTDSHYVVVEFSKVLNLSEPEEVFIAAEGTYNVKLDGKLQFGmPETLLLPAGKHSLNIKVWNQATPPTIYVKGKTVNSDSSWRVTYEDKEWIDESGKASDTSATIYmDAGCWNFDGATQRPSQFSLmREPQQPVAKTEQPEGGILYDFGKETFGFITLKNLSGKGKIDLYYGESPEEAKDKAYCETLDKLLLEPGQITDLAIRSTSPLHHSDNEYTLENSKAFRYVYITHEPEVQIGEVSmQYEYLPEEYRGNFRCNDEELNCIWEVGAYTmHLTTREFFIDGIKRDRWVWSGDAIQSYLmNYYLFFDSESVKRTIWLLRGKDPVTSHSNTImDYTFYWFLSVYDYYmYSGDRHFVNQLYPRmQTmmDYVLGRTNKNGmVEGmSGDWVFVDWADGYLDKKGELSFEQVLFCRSLETmALCADLVGDKDGQQKYEKLASALKAKLEPTFWNNQKQAFVHNCVDGRQSDAVTRYANmFSVFFDYLNADKQQAIKQSVLLNDEILKITTPYmRFYELEALCALGEQETVmKEmKAYWGGmLKAGATSFWEKYNPEESGTQHLAmYGRPYGKSLCHAWGASPIYLLGKYYLGVKPTKEGYKEFAVSPVLGGLKWmEGTVPTPNGDIHVYmDNKTIKVKATEGKGYLTIQSRRQPKANmGTVEKVSEGVWRLWIDSPEERIVTYRL 731
                                    27       |37        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       307       317    |  327       337       347   |   357       367       377     | 387       397|      407     | 417       427 |   | 437       447       457       467       477       487       497       507       517       527       537       547       557 |     567       577  |    587       597       607   |   617       627       637       647       657   |   667       677       687       697      |707       717       727    
                                            35-MSE                                                    93-MSE                                                         157-MSE             177-MSE                                                                                                           291-MSE                        322-MSE                      351-MSE                         383-MSE        398-MSE        413-MSE         429-MSE                               467-MSE                                                   525-MSE                           559-MSE           577-MSE     |                     611-MSE                                           661-MSE        676-MSE                     704-MSE                       
                                                                                                                                                                                                                                                                                                                                                                                                                                        416-MSE          433-MSE                                                                                                                                            580-MSE  |                                                                                                                                                
                                                                                                                                                                                                                                                                                                                                                                                                                                         417-MSE                                                                                                                                                                   587-MSE

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 3CIH)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Jelly Rolls (1293)

Homologous Superfamily: Galactose-binding domain-like (195)

Bacteroides thetaiotaomicron vpi-5482. Organism_taxid: 226186. Strain:vpi-5482 / dsm 2079 / nctc 10582 / e50. (2)

1a	3cihA01	A:18-175
1b	3cihA02	A:176-298

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

Asymmetric Unit(hide GO term definitions)

Chain A (Q8A916_BACTN | Q8A916)

molecular function
	GO:0003824		catalytic activity		Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.

Asymmetric Unit
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	Cis Peptide Bonds
		Asp A:373 - Pro A:374	[ RasMol ]

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	Complete Structure
		Biological Unit 1	[ Jena3D ]

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Ligands, Modified Residues, Ions (3, 28)

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