3R5X - JenaLib

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Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF D-ALANINE--D-ALANINE LIGASE FROM BACILLUS ANTHRACIS COMPLEXED WITH ATP

Authors :   Y. Kim, R. Mulligan, J. Hasseman, W. F. Anderson, A. Joachimiak, Center Structural Genomics Of Infectious Diseases (Csgid)

Date :   20 Mar 11 (Deposition) - 06 Apr 11 (Release) - 01 Jul 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Alpha-Beta Structure, Ligase, Cytosol, Structural Genomics, Center For Structural Genomics Of Infectious Diseases, Csgid (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Kim, J. Hasseman, W. F. Anderson, A. Joachimiak, Center For Structural Genomics Of Infectious Diseases (Csgid)
Crystal Structure Of D-Alanine--D-Alanine Ligase From Bacillus Anthracis Complexed With Atp
To Be Published
PubMed: search

Molecule 1 - D-ALANINE--D-ALANINE LIGASE
	Chains	:	A, B, C, D
	EC Number	:	6.3.2.4
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMCSG7
	Expression System Strain	:	BL21 MAGIC
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	BAS2435, BA_2610, DDL, DDLB, GBAA_2610
	Organism Common	:	ANTHRAX,ANTHRAX BACTERIUM
	Organism Scientific	:	BACILLUS ANTHRACIS
	Organism Taxid	:	1392
	Strain	:	AMES
	Synonym	:	D-ALA-D-ALA LIGASE, D-ALANYLALANINE SYNTHETASE

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (6, 70)

No.	Name	Count	Type	Full Name
1	ACY	1	Ligand/Ion	ACETIC ACID
2	ATP	4	Ligand/Ion	ADENOSINE-5'-TRIPHOSPHATE
3	CA	7	Ligand/Ion	CALCIUM ION
4	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
5	MG	1	Ligand/Ion	MAGNESIUM ION
6	MSE	56	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (2, 30)

No.	Name	Count	Type	Full Name
1	ACY	-1	Ligand/Ion	ACETIC ACID
2	ATP	2	Ligand/Ion	ADENOSINE-5'-TRIPHOSPHATE
3	CA	-1	Ligand/Ion	CALCIUM ION
4	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
5	MG	-1	Ligand/Ion	MAGNESIUM ION
6	MSE	28	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (4, 32)

No.	Name	Count	Type	Full Name
1	ACY	1	Ligand/Ion	ACETIC ACID
2	ATP	2	Ligand/Ion	ADENOSINE-5'-TRIPHOSPHATE
3	CA	-1	Ligand/Ion	CALCIUM ION
4	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
5	MG	-1	Ligand/Ion	MAGNESIUM ION
6	MSE	28	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (14, 14)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASP A:248 , GLU A:260 , ATP A:402 , HOH A:706	BINDING SITE FOR RESIDUE CA A 401
02	AC2	SOFTWARE	LYS A:95 , VAL A:134 , LYS A:136 , VAL A:146 , GLU A:172 , LYS A:173 , TYR A:174 , ILE A:175 , GLU A:179 , MSE A:259 , GLU A:260 , ASN A:262 , CA A:401 , HOH A:573 , HOH A:598 , HOH A:687 , HOH A:688 , HOH A:706	BINDING SITE FOR RESIDUE ATP A 402
03	AC3	SOFTWARE	ASP B:248 , GLU B:260 , ATP B:402	BINDING SITE FOR RESIDUE CA B 401
04	AC4	SOFTWARE	GLU B:66 , LYS B:95 , VAL B:134 , LYS B:136 , GLY B:145 , VAL B:146 , GLU B:172 , LYS B:173 , TYR B:174 , ILE B:175 , GLU B:179 , MSE B:250 , MSE B:259 , GLU B:260 , ASN B:262 , CA B:401 , HOH B:651	BINDING SITE FOR RESIDUE ATP B 402
05	AC5	SOFTWARE	ASN A:31 , HOH A:681 , GLY B:281 , HOH B:619 , HOH B:620 , HOH B:621 , HOH B:622	BINDING SITE FOR RESIDUE CA B 403
06	AC6	SOFTWARE	ARG C:246 , ASP C:248 , GLU C:260 , ATP C:402 , HOH C:616	BINDING SITE FOR RESIDUE CA C 401
07	AC7	SOFTWARE	LYS C:63 , LYS C:95 , VAL C:134 , LYS C:136 , VAL C:146 , GLU C:172 , LYS C:173 , TYR C:174 , ILE C:175 , GLU C:179 , MSE C:250 , MSE C:259 , GLU C:260 , CA C:401 , HOH C:616 , HOH C:618	BINDING SITE FOR RESIDUE ATP C 402
08	AC8	SOFTWARE	PHE A:131 , HOH A:629 , HOH A:686 , GLU C:108 , HOH C:637	BINDING SITE FOR RESIDUE CA C 403
09	AC9	SOFTWARE	ARG C:299 , GLU C:302 , HOH C:643 , HOH C:644 , HOH C:645	BINDING SITE FOR RESIDUE MG C 404
10	BC1	SOFTWARE	ASP A:203 , HOH A:525 , ASP D:248 , GLU D:260 , ATP D:402 , HOH D:660	BINDING SITE FOR RESIDUE CA D 401
11	BC2	SOFTWARE	PHE A:201 , ASP A:203 , HOH A:525 , HOH A:569 , HOH A:661 , LYS D:95 , VAL D:134 , LYS D:136 , VAL D:146 , GLU D:172 , LYS D:173 , TYR D:174 , ILE D:175 , GLU D:179 , MSE D:250 , MSE D:259 , GLU D:260 , ASN D:262 , CA D:401 , HOH D:527 , HOH D:615 , HOH D:625 , HOH D:660 , HOH D:677 , HOH D:691 , HOH D:700	BINDING SITE FOR RESIDUE ATP D 402
12	BC3	SOFTWARE	ASP A:253 , GLU D:200 , ASP D:203 , TYR D:208 , HOH D:667 , HOH D:668	BINDING SITE FOR RESIDUE CA D 403
13	BC4	SOFTWARE	GLU D:75 , ARG D:299 , GLU D:302 , PHE D:304 , HOH D:726	BINDING SITE FOR RESIDUE EDO D 404
14	BC5	SOFTWARE	ASP D:111 , HOH D:623	BINDING SITE FOR RESIDUE ACY D 405

(no "SS Bond" information available for 3R5X)

Asymmetric Unit

No.	Residues
1	Phe A:131	-	Pro A:132
2	Phe B:131	-	Pro B:132
3	Phe C:131	-	Pro C:132
4	Phe D:131	-	Pro D:132

(no "SAP(SNP)/Variant" information available for 3R5X)

Asymmetric Unit (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DALA_DALA_LIGASE_1	PS00843	D-alanine--D-alanine ligase signature 1.	DDL_BACAN	61-72	4	A:61-72 B:61-72 C:61-72 D:61-72
2	DALA_DALA_LIGASE_2	PS00844	D-alanine--D-alanine ligase signature 2.	DDL_BACAN	239-266	4	A:239-266 B:239-266 C:239-266 D:239-266

Biological Unit 1 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DALA_DALA_LIGASE_1	PS00843	D-alanine--D-alanine ligase signature 1.	DDL_BACAN	61-72	2	A:61-72 B:61-72 - -
2	DALA_DALA_LIGASE_2	PS00844	D-alanine--D-alanine ligase signature 2.	DDL_BACAN	239-266	2	A:239-266 B:239-266 - -

Biological Unit 2 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DALA_DALA_LIGASE_1	PS00843	D-alanine--D-alanine ligase signature 1.	DDL_BACAN	61-72	2	- - C:61-72 D:61-72
2	DALA_DALA_LIGASE_2	PS00844	D-alanine--D-alanine ligase signature 2.	DDL_BACAN	239-266	2	- - C:239-266 D:239-266

(no "Exon" information available for 3R5X)

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:302
 aligned with DDL_BACAN | Q81Q29 from UniProtKB/Swiss-Prot  Length:304

    Alignment length:306
                               1                                                                                                                                                                                                                                                                                                              
                               |     7        17        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      
            DDL_BACAN     - ---MRIGVIMGGVSSEKQVSIMTGNEMIANLDKNKYEIVPITLNEKMDLIEKAKDIDFALLALHGKYGEDGTVQGTLESLGIPYSGSNMLSSGICMDKNISKKILRYEGIETPDWIELTKMEDLNFDELDKLGFPLVVKPNSGGSSVGVKIVYDKDELISMLETVFEWDSEVVIEKYIKGEEITCSIFDGKQLPIISIRHAAEFFDYNAKYDDASTIEEVIELPAELKERVNKASLACYKALKCSVYARVDMMVKDGIPYVMEVNTLPGMTQASLLPKSADAAGIHYSKLLDMIIETSLRVRKEEG 303
               SCOP domains d3r5xa2 A:-2-93 D-Ala-D-Ala ligase, N-domain                                                    d3r5xa1 A:94-303 automated matches                                                                                                                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeee..hhhhhhhhhhhhhhhhhhh....eeeeeee..hhhhhhhhh....eeee...hhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh......eeeee.....hhhhhhhhh..eeeee.----....eee.hhhhhhhhhhhhhhhh.eeeeee....eeeeeeee..ee...eeeeeeeeee..eeeeeeeeeeeee...hhhhhhhhhhhhhhhhhhh....eeeeeeeee..eeeeeeee........hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------DALA_DALA_LI----------------------------------------------------------------------------------------------------------------------------------------------------------------------DALA_DALA_LIGASE_2          ------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3r5x A  -2 SNAmRIGVImGGVSSEKQVSImTGNEmIANLDKNKYEIVPITLNEKmDLIEKAKDIDFALLALHGKYGEDGTVQGTLESLGIPYSGSNmLSSGICmDKNISKKILRYEGIETPDWIELTKmEDLNFDELDKLGFPLVVKPN----SVGVKIVYDKDELISmLETVFEWDSEVVIEKYIKGEEITCSIFDGKQLPIISIRHAAEFFDYNAKYDDASTIEEVIELPAELKERVNKASLACYKALKCSVYARVDmmVKDGIPYVmEVNTLPGmTQASLLPKSADAAGIHYSKLLDmIIETSLRVRKEEG 303
                               |     7        17 |    | 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      
                               |     7-MSE      19-MSE|                  44-MSE                                    86-MSE 93-MSE                  118-MSE             138  143            158-MSE                                                                                    249-MSE   259-MSE 267-MSE                290-MSE         
                               1-MSE                 24-MSE                                                                                                                                                                                                                           250-MSE

Chain B from PDB  Type:PROTEIN  Length:291
 aligned with DDL_BACAN | Q81Q29 from UniProtKB/Swiss-Prot  Length:304

    Alignment length:304
                             1                                                                                                                                                                                                                                                                                                              
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299    
            DDL_BACAN     - -MRIGVIMGGVSSEKQVSIMTGNEMIANLDKNKYEIVPITLNEKMDLIEKAKDIDFALLALHGKYGEDGTVQGTLESLGIPYSGSNMLSSGICMDKNISKKILRYEGIETPDWIELTKMEDLNFDELDKLGFPLVVKPNSGGSSVGVKIVYDKDELISMLETVFEWDSEVVIEKYIKGEEITCSIFDGKQLPIISIRHAAEFFDYNAKYDDASTIEEVIELPAELKERVNKASLACYKALKCSVYARVDMMVKDGIPYVMEVNTLPGMTQASLLPKSADAAGIHYSKLLDMIIETSLRVRKEEG 303
               SCOP domains d3r5xb2 B:0-93 D-Ala-D-Ala ligase, N-domain                                                   d3r5xb1 B:94-303 automated matches                                                                                                                                                                                 SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee..hhhhhhhhhhhhhhhhhhh....eeeeeee..hhhhhhhhhhhh.eeee...hhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh......eeeee.....hhhhhhhhh..eeeee...----...ee.hhhhhhhhhhhhhhhh.eeeeee....eeeeeeee..ee...eeeee.....---------.eeeee...hhhhhhhhhhhhhhhhhhh....eeeeeeeee..eeeeeeee........hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------DALA_DALA_LI----------------------------------------------------------------------------------------------------------------------------------------------------------------------DALA_DALA_LIGASE_2          ------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3r5x B   0 AmRIGVImGGVSSEKQVSImTGNEmIANLDKNKYEIVPITLNEKmDLIEKAKDIDFALLALHGKYGEDGTVQGTLESLGIPYSGSNmLSSGICmDKNISKKILRYEGIETPDWIELTKmEDLNFDELDKLGFPLVVKPNSG----GVKIVYDKDELISmLETVFEWDSEVVIEKYIKGEEITCSIFDGKQLPIISIRHAAEFF---------STIEEVIELPAELKERVNKASLACYKALKCSVYARVDmmVKDGIPYVmEVNTLPGmTQASLLPKSADAAGIHYSKLLDmIIETSLRVRKEEG 303
                             |     | 9        19    |   29        39    |   49        59        69        79      | 89   |    99       109       119       129       139|    | 149       159       169       179       189       199  |      -  |    219       229       239       249|      259       269       279       289|      299    
                             1-MSE 7-MSE      19-MSE|                  44-MSE                                    86-MSE 93-MSE                  118-MSE               140  145          158-MSE                                     202       212                                  249-MSE   259-MSE 267-MSE                290-MSE         
                                                   24-MSE                                                                                                                                                                                                                           250-MSE

Chain C from PDB  Type:PROTEIN  Length:284
 aligned with DDL_BACAN | Q81Q29 from UniProtKB/Swiss-Prot  Length:304

    Alignment length:305
                             1                                                                                                                                                                                                                                                                                                               
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299     
            DDL_BACAN     - -MRIGVIMGGVSSEKQVSIMTGNEMIANLDKNKYEIVPITLNEKMDLIEKAKDIDFALLALHGKYGEDGTVQGTLESLGIPYSGSNMLSSGICMDKNISKKILRYEGIETPDWIELTKMEDLNFDELDKLGFPLVVKPNSGGSSVGVKIVYDKDELISMLETVFEWDSEVVIEKYIKGEEITCSIFDGKQLPIISIRHAAEFFDYNAKYDDASTIEEVIELPAELKERVNKASLACYKALKCSVYARVDMMVKDGIPYVMEVNTLPGMTQASLLPKSADAAGIHYSKLLDMIIETSLRVRKEEGF 304
               SCOP domains d3r5xc2 C:0-93 D-Ala-D-Ala ligase, N-domain                                                   d3r5xc1 C:94-304 automated matches                                                                                                                                                                                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.hhhhhhhhhhhhhhhhhhh....eeeeeeee.hhhhhhhhhhhh.eeee...hhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh......eeeee.....hhhhhhhhh..eeeee.------..eee.hhhhhhhhhhhhhhhh.eeeeee....eeeeeeee..ee...eeee.---------------.eeee...hhhhhhhhhhhhhhhhhhh....eeeeeeeee..eeeeeeee........hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------DALA_DALA_LI----------------------------------------------------------------------------------------------------------------------------------------------------------------------DALA_DALA_LIGASE_2          -------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3r5x C   0 AmRIGVImGGVSSEKQVSImTGNEmIANLDKNKYEIVPITLNEKmDLIEKAKDIDFALLALHGKYGEDGTVQGTLESLGIPYSGSNmLSSGICmDKNISKKILRYEGIETPDWIELTKmEDLNFDELDKLGFPLVVKPN------GVKIVYDKDELISmLETVFEWDSEVVIEKYIKGEEITCSIFDGKQLPIISIRH---------------TIEEVIELPAELKERVNKASLACYKALKCSVYARVDmmVKDGIPYVmEVNTLPGmTQASLLPKSADAAGIHYSKLLDmIIETSLRVRKEEGF 304
                             |     | 9        19    |   29        39    |   49        59        69        79      | 89   |    99       109       119       129        |-     | 149       159       169       179       189       | -         -   |   219       229       239       249|      259       269       279       289|      299     
                             1-MSE 7-MSE      19-MSE|                  44-MSE                                    86-MSE 93-MSE                  118-MSE             138    145          158-MSE                                197             213                                 249-MSE   259-MSE 267-MSE                290-MSE          
                                                   24-MSE                                                                                                                                                                                                                           250-MSE

Chain D from PDB  Type:PROTEIN  Length:306
 aligned with DDL_BACAN | Q81Q29 from UniProtKB/Swiss-Prot  Length:304

    Alignment length:306
                              1                                                                                                                                                                                                                                                                                                               
                              |      8        18        28        38        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      
            DDL_BACAN     - --MRIGVIMGGVSSEKQVSIMTGNEMIANLDKNKYEIVPITLNEKMDLIEKAKDIDFALLALHGKYGEDGTVQGTLESLGIPYSGSNMLSSGICMDKNISKKILRYEGIETPDWIELTKMEDLNFDELDKLGFPLVVKPNSGGSSVGVKIVYDKDELISMLETVFEWDSEVVIEKYIKGEEITCSIFDGKQLPIISIRHAAEFFDYNAKYDDASTIEEVIELPAELKERVNKASLACYKALKCSVYARVDMMVKDGIPYVMEVNTLPGMTQASLLPKSADAAGIHYSKLLDMIIETSLRVRKEEGF 304
               SCOP domains d3r5xd2 D:-1-93 D-Ala-D-Ala ligase, N-domain                                                   d3r5xd1 D:94-304 automated matches                                                                                                                                                                                  SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) ------------------------------------------Dala_Dala_lig_N-3r5xD05 D:41-84             ----------------Dala_Dala_lig_C-3r5xD01 D:101-293                                                                                                                                                                ----------- Pfam domains (1)
           Pfam domains (2) ------------------------------------------Dala_Dala_lig_N-3r5xD06 D:41-84             ----------------Dala_Dala_lig_C-3r5xD02 D:101-293                                                                                                                                                                ----------- Pfam domains (2)
           Pfam domains (3) ------------------------------------------Dala_Dala_lig_N-3r5xD07 D:41-84             ----------------Dala_Dala_lig_C-3r5xD03 D:101-293                                                                                                                                                                ----------- Pfam domains (3)
           Pfam domains (4) ------------------------------------------Dala_Dala_lig_N-3r5xD08 D:41-84             ----------------Dala_Dala_lig_C-3r5xD04 D:101-293                                                                                                                                                                ----------- Pfam domains (4)
           Pfam domains (5) ------------------------------------------Dala_Dala_lig_N-3r5xD09 D:41-84             ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (5)
           Pfam domains (6) ------------------------------------------Dala_Dala_lig_N-3r5xD10 D:41-84             ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (6)
           Pfam domains (7) ------------------------------------------Dala_Dala_lig_N-3r5xD11 D:41-84             ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (7)
           Pfam domains (8) ------------------------------------------Dala_Dala_lig_N-3r5xD12 D:41-84             ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains (8)
         Sec.struct. author ..eeeeeeee.hhhhhhhhhhhhhhhhhhh....eeeeeeee.hhhhhhhhh....eeee...hhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhh......eeeee.....hhhhhhhhh..eeeee.........eee.hhhhhhhhhhhhhhhh.eeeeee....eeeeeeee..ee...eeee.hhhhh...........eeee...hhhhhhhhhhhhhhhhhhh....eeeeeeeee..eeeeeeee........hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --------------------------------------------------------------DALA_DALA_LI----------------------------------------------------------------------------------------------------------------------------------------------------------------------DALA_DALA_LIGASE_2          -------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3r5x D  -1 NAmRIGVImGGVSSEKQVSImTGNEmIANLDKNKYEIVPITLNEKmDLIEKAKDIDFALLALHGKYGEDGTVQGTLESLGIPYSGSNmLSSGICmDKNISKKILRYEGIETPDWIELTKmEDLNFDELDKLGFPLVVKPNSGGSSVGVKIVYDKDELISmLETVFEWDSEVVIEKYIKGEEITCSIFDGKQLPIISIRHAAEFFDYNAKYDDASTIEEVIELPAELKERVNKASLACYKALKCSVYARVDmmVKDGIPYVmEVNTLPGmTQASLLPKSADAAGIHYSKLLDmIIETSLRVRKEEGF 304
                              |     |8        18|    |  28        38     |  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      
                              1-MSE 7-MSE      19-MSE|                  44-MSE                                    86-MSE 93-MSE                  118-MSE                                 158-MSE                                                                                    249-MSE   259-MSE 267-MSE                290-MSE          
                                                    24-MSE                                                                                                                                                                                                                           250-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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a+b) (23004)

Fold: ATP-grasp (191)

Superfamily: Glutathione synthetase ATP-binding domain-like (158)

Family: automated matches (42)

Protein domain: automated matches (42)

Anthrax bacillus (Bacillus anthracis) [TaxId: 1392] (1)

1a	d3r5xa1	A:94-303
1b	d3r5xb1	B:94-303
1c	d3r5xc1	C:94-304
1d	d3r5xd1	D:94-304

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

Fold: PreATP-grasp domain (131)

Superfamily: PreATP-grasp domain (131)

Family: D-Alanine ligase N-terminal domain (7)

Protein domain: D-Ala-D-Ala ligase, N-domain (5)

Anthrax bacillus (Bacillus anthracis) [TaxId: 1392] (1)

2a	d3r5xa2	A:-2-93
2b	d3r5xb2	B:0-93
2c	d3r5xc2	C:0-93
2d	d3r5xd2	D:-1-93

(no "CATH Domain" information available for 3R5X)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (DDL_BACAN | Q81Q29)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0008716	D-alanine-D-alanine ligase activity	Catalysis of the reaction: 2 D-alanine + ATP = D-alanyl-D-alanine + ADP + 2 H(+) + phosphate.
	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.
	GO:0016874	ligase activity	Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
	GO:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0030145	manganese ion binding	Interacting selectively and non-covalently with manganese (Mn) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
biological process
	GO:0071555	cell wall organization	A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
	GO:0009252	peptidoglycan biosynthetic process	The chemical reactions and pathways resulting in the formation of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls.
	GO:0008360	regulation of cell shape	Any process that modulates the surface configuration of a cell.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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	DDL_BACAN \| Q81Q29	:	3r23

3r23	THE SAME PROTEIN APO-FORM RELATED ID: IDP01207 RELATED DB: TARGETDB

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (6, 70)

Sites (14, 14)

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