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Title :   CRYSTAL STRUCTURE OF AN ALA RACEMASE-LIKE PROTEIN (IL1761) FROM IDIOMARINA LOIHIENSIS AT 1.50 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   29 Jan 10 (Deposition) - 09 Feb 10 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.50

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

Keywords :   Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi-2, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Protein Of Unknown Function (Yp_156143. 1) From Idiomarina Loihiensis L2Tr At 1. 50 A Resolution
To Be Published
PubMed: search

Molecule 1 - PREDICTED AMINO ACID ALDOLASE OR RACEMASE
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	SPEEDET
	Expression System Strain	:	HK100
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	IL1761
	Organism Scientific	:	IDIOMARINA LOIHIENSIS
	Organism Taxid	:	283942
	Strain	:	L2TR

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (6, 25)

No.	Name	Count	Type	Full Name
1	CL	6	Ligand/Ion	CHLORIDE ION
2	EDO	9	Ligand/Ion	1,2-ETHANEDIOL
3	LLP	1	Mod. Amino Acid	2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE)
4	MSE	7	Mod. Amino Acid	SELENOMETHIONINE
5	TRS	1	Ligand/Ion	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
6	ZN	1	Ligand/Ion	ZINC ION

Biological Unit 1 (4, 36)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	18	Ligand/Ion	1,2-ETHANEDIOL
3	LLP	2	Mod. Amino Acid	2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE)
4	MSE	14	Mod. Amino Acid	SELENOMETHIONINE
5	TRS	2	Ligand/Ion	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
6	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (17, 17)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS A:346 , CYS A:348 , TRS A:383 , HOH A:576	BINDING SITE FOR RESIDUE ZN A 376
02	AC2	SOFTWARE	LYS A:302 , HIS A:338	BINDING SITE FOR RESIDUE CL A 377
03	AC3	SOFTWARE	CYS A:178 , ASN A:179 , THR A:180 , GLY A:183	BINDING SITE FOR RESIDUE CL A 378
04	AC4	SOFTWARE	TRP A:279 , ARG A:284 , SER A:317 , TRS A:383	BINDING SITE FOR RESIDUE CL A 379
05	AC5	SOFTWARE	ASN A:114 , ILE A:115 , LYS A:153 , HOH A:849	BINDING SITE FOR RESIDUE CL A 380
06	AC6	SOFTWARE	ASP A:304 , ARG A:341 , HOH A:807	BINDING SITE FOR RESIDUE CL A 381
07	AC7	SOFTWARE	ARG A:284 , ASP A:285 , SER A:286	BINDING SITE FOR RESIDUE CL A 382
08	AC8	SOFTWARE	LLP A:46 , ARG A:144 , HIS A:171 , TYR A:176 , TRP A:279 , SER A:317 , GLN A:318 , HIS A:346 , CYS A:348 , ZN A:376 , CL A:379 , HOH A:576 , HOH A:663 , HOH A:706	BINDING SITE FOR RESIDUE TRS A 383
09	AC9	SOFTWARE	ASN A:26 , HIS A:221 , VAL A:249 , HIS A:254 , HOH A:559 , HOH A:574 , HOH A:808	BINDING SITE FOR RESIDUE EDO A 384
10	BC1	SOFTWARE	ASP A:294 , GLY A:296 , ASN A:314 , HOH A:514	BINDING SITE FOR RESIDUE EDO A 385
11	BC2	SOFTWARE	TRP A:272 , ASN A:314 , SER A:315 , VAL A:322 , GLU A:324 , HOH A:531 , HOH A:784	BINDING SITE FOR RESIDUE EDO A 386
12	BC3	SOFTWARE	GLY A:89 , GLU A:137 , ARG A:144 , GLY A:145 , HIS A:320 , HOH A:743	BINDING SITE FOR RESIDUE EDO A 387
13	BC4	SOFTWARE	GLY A:55 , LEU A:58 , TYR A:81 , EDO A:389 , HOH A:397 , HOH A:440	BINDING SITE FOR RESIDUE EDO A 388
14	BC5	SOFTWARE	SER A:60 , LYS A:61 , GLN A:182 , EDO A:388 , HOH A:621 , HOH A:845 , HOH A:850 , HOH A:908	BINDING SITE FOR RESIDUE EDO A 389
15	BC6	SOFTWARE	ASP A:193 , ILE A:197 , HOH A:401	BINDING SITE FOR RESIDUE EDO A 390
16	BC7	SOFTWARE	TYR A:176 , GLY A:287 , HOH A:522 , HOH A:558	BINDING SITE FOR RESIDUE EDO A 391
17	BC8	SOFTWARE	GLU A:52 , THR A:368 , GLN A:370 , HOH A:435 , HOH A:631 , HOH A:859	BINDING SITE FOR RESIDUE EDO A 392

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

Asymmetric Unit

No.	Residues
1	Thr A:13	-	Pro A:14

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

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

(no "Exon" information available for 3LLX)

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:373
 aligned with Q5QX87_IDILO | Q5QX87 from UniProtKB/TrEMBL  Length:375

    Alignment length:373
                                    12        22        32        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       322       332       342       352       362       372   
         Q5QX87_IDILO     3 SAPDWIAHPDTPYLLIDEAKLKSNINYLKQRVESLGSHLRPHLKTLRTLEAAGYLLDSKSAPATVSTLAEAEAYAKAGYTDLLYAVGIAPAKLKRVAALRQQGINLHILLDNITQAQAVVDYAAEFGQDFSVFIEIDSDDHRGGIKPSDSKLLTIAKTLGEHFTGLMTHAGGSYACNTEQGLKNFAKQECDAVRIARNNLETAGIHCAITSVGSTPTAHFGEDFSDISEVRAGVYTTFDLVMKNIGVCDFSHIAMSVVTTVIGHNKEKNWLLTDSGWMALSRDSGTAGQNRDFGYGQVCKIDGSVLDGLCVNSTSQEHGVIELSDAYQLEDFPVGHQLRIMPNHACATAAMHPVYHVLMSDGSHNTWQRITGW 375
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------Ala_racemase_N-3llxA01 A:18-242                                                                                                                                                                                                  -------------D-ser_dehydrat-3llxA02 A:256-361                                                                          -------------- Pfam domains
         Sec.struct. author ..hhhhhh....eeeeehhhhhhhhhhhhhhhhhh............hhhhhhhhh......eee.hhhhhhhhhhh...eeeeeee.hhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhhh...eeeee..............hhhhhhhhhhh..eeeee..hhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.....eeee.hhhhhhhh.......ee..hhhhh.hhhhhhhh..hhhhh.eeeeeeeeeee....eeee..hhhhhh..hhhhhh.......eee.....eeeeee..ee....eeee.....hhhhh....eeeee..hhhhhhh...eeeee.....eeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3llx A   3 SAPDWIAHPDTPYLLIDEAKLKSNINYLKQRVESLGSHLRPHLkTLRTLEAAGYLLDSKSAPATVSTLAEAEAYAKAGYTDLLYAVGIAPAKLKRVAALRQQGINLHILLDNITQAQAVVDYAAEFGQDFSVFIEIDSDDHRGGIKPSDSKLLTIAKTLGEHFTGLmTHAGGSYACNTEQGLKNFAKQECDAVRIARNNLETAGIHCAITSVGSTPTAHFGEDFSDISEVRAGVYTTFDLVmKNIGVCDFSHIAmSVVTTVIGHNKEKNWLLTDSGWmALSRDSGTAGQNRDFGYGQVCKIDGSVLDGLCVNSTSQEHGVIELSDAYQLEDFPVGHQLRImPNHACATAAmHPVYHVLmSDGSHNTWQRITGW 375
                                    12        22        32        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       322       332       342|      352|      362       372   
                                                                      46-LLP                                                                                                                    169-MSE                                                                    244-MSE      257-MSE                280-MSE                                                        343-MSE   353-MSE 361-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 3LLX)

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

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: TIM_barrel (694)

Family: Ala_racemase_N (19)

Idiomarina loihiensis (1)

Ala_racemase_N-3llxA01

A:18-242

Clan: no clan defined [family: D-ser_dehydrat] (1)

Family: D-ser_dehydrat (1)

Idiomarina loihiensis (1)

D-ser_dehydrat-3llxA02

A:256-361

Asymmetric Unit(hide GO term definitions)

(no "Gene Ontology" information available for 3LLX)

Asymmetric Unit
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	Cis Peptide Bonds
		Thr A:13 - Pro A:14	[ RasMol ]

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (6, 25)

Sites (17, 17)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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