4A1I - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Biological Unit 5 (Jmol Viewer)

Title :   YKUD FROM B.SUBTILIS

Authors :   M. Blaise, S. Fuglsang Midtgaard, S. Roi Midtgaard, T. Boesen, S. Thi

Date :   15 Sep 11 (Deposition) - 26 Sep 12 (Release) - 03 Oct 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.76

Chains :   Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,H  (1x)
Biol. Unit 2: B (1x),G (1x)
Biol. Unit 3: B (1x),G (1x)
Biol. Unit 4: C,F  (1x)
Biol. Unit 5: D,E  (1x)

Keywords :   Transferase, Peptidoglycan Synthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Blaise, S. Fuglsang Midtgaard, S. Roi Midtgaard, T. Boesen, S. Thirup
Structures Of Three New Crystal Forms Of The Ykud L, D-Transpeptidase From B. Subtilis.
To Be Published
PubMed: search

Molecule 1 - PUTATIVE L, D-TRANSPEPTIDASE YKUD
	Chains	:	A, B, C, D, E, F, G, H
	EC Number	:	2.-.-.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector	:	PGS21A
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Scientific	:	BACILLUS SUBTILIS
	Organism Taxid	:	1423
	Synonym	:	YKUD L,D TRANSPEPTIDASE, SPORE PROTEIN YKUD

		1	2	3	4	5	6	7	8
Asymmetric Unit	:	A	B	C	D	E	F	G	H
Biological Unit 1 (1x)	:	A							H
Biological Unit 2 (1x)	:		B (1x)					G (1x)
Biological Unit 3 (1x)	:		B (1x)					G (1x)
Biological Unit 4 (1x)	:			C			F
Biological Unit 5 (1x)	:				D	E

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 38)

No.	Name	Count	Type	Full Name
1	CD	8	Ligand/Ion	CADMIUM ION
2	CL	8	Ligand/Ion	CHLORIDE ION
3	SO4	22	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 7)

No.	Name	Count	Type	Full Name
1	CD	-1	Ligand/Ion	CADMIUM ION
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	SO4	7	Ligand/Ion	SULFATE ION

Biological Unit 2 (1, 3)

No.	Name	Count	Type	Full Name
1	CD	-1	Ligand/Ion	CADMIUM ION
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	SO4	3	Ligand/Ion	SULFATE ION

Biological Unit 3 (1, 2)

No.	Name	Count	Type	Full Name
1	CD	-1	Ligand/Ion	CADMIUM ION
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 4 (1, 6)

No.	Name	Count	Type	Full Name
1	CD	-1	Ligand/Ion	CADMIUM ION
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	SO4	6	Ligand/Ion	SULFATE ION

Biological Unit 5 (1, 4)

No.	Name	Count	Type	Full Name
1	CD	-1	Ligand/Ion	CADMIUM ION
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	SO4	4	Ligand/Ion	SULFATE ION

Asymmetric Unit (38, 38)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS A:123 , SER A:136 , LYS A:137 , GLY A:138 , CYS A:139 , ARG A:141 , CD A:1169 , CL A:1170 , HOH A:2184 , HIS H:119	BINDING SITE FOR RESIDUE SO4 A1165
02	AC2	SOFTWARE	THR A:92 , ARG A:164 , HOH A:2157 , HOH A:2220 , HOH A:2221 , HOH A:2222 , HOH A:2223 , LEU D:12 , ASN H:13	BINDING SITE FOR RESIDUE SO4 A1166
03	AC3	SOFTWARE	ASN A:127 , VAL A:135 , ARG A:141 , HOH A:2190 , HOH A:2202	BINDING SITE FOR RESIDUE SO4 A1167
04	AC4	SOFTWARE	LEU A:12 , HOH A:2048 , HOH A:2049 , HOH A:2051 , HOH A:2224 , HOH A:2225 , THR D:92 , ARG D:164 , HOH E:2032	BINDING SITE FOR RESIDUE SO4 A1168
05	AC5	SOFTWARE	CYS A:139 , SO4 A:1165 , CL A:1170 , HOH A:2184 , HIS H:119	BINDING SITE FOR RESIDUE CD A1169
06	AC6	SOFTWARE	PHE A:108 , HIS A:119 , SO4 A:1165 , CD A:1169 , HOH A:2184 , HIS H:119	BINDING SITE FOR RESIDUE CL A1170
07	AC7	SOFTWARE	HIS B:123 , SER B:136 , LYS B:137 , GLY B:138 , CYS B:139 , ARG B:141 , CD B:1167 , CL B:1168 , HOH B:2170	BINDING SITE FOR RESIDUE SO4 B1165
08	AC8	SOFTWARE	THR B:92 , ARG B:164 , HOH B:2202 , HOH B:2203 , HOH B:2204 , HOH B:2205	BINDING SITE FOR RESIDUE SO4 B1166
09	AC9	SOFTWARE	CYS B:139 , SO4 B:1165 , CL B:1168 , HOH B:2170	BINDING SITE FOR RESIDUE CD B1167
10	BC1	SOFTWARE	PHE B:108 , HIS B:119 , SO4 B:1165 , CD B:1167 , HOH B:2170	BINDING SITE FOR RESIDUE CL B1168
11	BC2	SOFTWARE	HIS C:123 , SER C:136 , LYS C:137 , GLY C:138 , CYS C:139 , ARG C:141 , CD C:1168 , CL C:1169 , HOH C:2173 , HOH C:2200 , HIS F:119	BINDING SITE FOR RESIDUE SO4 C1165
12	BC3	SOFTWARE	THR C:92 , ARG C:164 , HOH C:2149 , HOH C:2199 , HOH C:2201 , HOH C:2202 , HOH C:2203	BINDING SITE FOR RESIDUE SO4 C1166
13	BC4	SOFTWARE	ASN C:127 , VAL C:135 , ARG C:141 , HOH C:2184 , HOH C:2187	BINDING SITE FOR RESIDUE SO4 C1167
14	BC5	SOFTWARE	CYS C:139 , SO4 C:1165 , CL C:1169 , HOH C:2173 , HIS F:119	BINDING SITE FOR RESIDUE CD C1168
15	BC6	SOFTWARE	PHE C:108 , HIS C:119 , SO4 C:1165 , CD C:1168 , HOH C:2173 , HIS F:119 , HOH F:2128	BINDING SITE FOR RESIDUE CL C1169
16	BC7	SOFTWARE	HIS D:123 , SER D:136 , LYS D:137 , GLY D:138 , CYS D:139 , ARG D:141 , CD D:1166 , CL D:1167 , HOH D:2175 , HOH D:2211 , HIS E:119	BINDING SITE FOR RESIDUE SO4 D1165
17	BC8	SOFTWARE	CYS D:139 , SO4 D:1165 , CL D:1167 , HOH D:2175 , HIS E:119	BINDING SITE FOR RESIDUE CD D1166
18	BC9	SOFTWARE	PHE D:108 , TRP D:112 , HIS D:119 , SO4 D:1165 , CD D:1166 , HOH D:2175 , HIS E:119	BINDING SITE FOR RESIDUE CL D1167
19	CC1	SOFTWARE	HIS D:119 , HIS E:123 , SER E:136 , LYS E:137 , GLY E:138 , CYS E:139 , ARG E:141 , CD E:1168 , CL E:1169 , HOH E:2144 , HOH E:2169	BINDING SITE FOR RESIDUE SO4 E1165
20	CC2	SOFTWARE	ASN A:73 , ARG A:159 , HOH A:2121 , GLU E:94 , TYR E:96 , ARG E:159 , HOH E:2006	BINDING SITE FOR RESIDUE SO4 E1166
21	CC3	SOFTWARE	ASN E:127 , ARG E:141 , HOH E:2147	BINDING SITE FOR RESIDUE SO4 E1167
22	CC4	SOFTWARE	HIS D:119 , CYS E:139 , SO4 E:1165 , CL E:1169 , HOH E:2144	BINDING SITE FOR RESIDUE CD E1168
23	CC5	SOFTWARE	HIS D:119 , PHE E:108 , TRP E:112 , HIS E:119 , SO4 E:1165 , CD E:1168 , HOH E:2115 , HOH E:2144	BINDING SITE FOR RESIDUE CL E1169
24	CC6	SOFTWARE	HIS C:119 , HIS F:123 , SER F:136 , LYS F:137 , GLY F:138 , CYS F:139 , ARG F:141 , CD F:1168 , CL F:1169 , HOH F:2162 , HOH F:2192	BINDING SITE FOR RESIDUE SO4 F1165
25	CC7	SOFTWARE	TYR F:96 , ARG F:159 , HOH F:2005 , HOH F:2101 , HOH F:2194	BINDING SITE FOR RESIDUE SO4 F1166
26	CC8	SOFTWARE	ASN F:127 , ARG F:141 , HOH F:2163 , HOH F:2173	BINDING SITE FOR RESIDUE SO4 F1167
27	CC9	SOFTWARE	HIS C:119 , CYS F:139 , SO4 F:1165 , CL F:1169 , HOH F:2162	BINDING SITE FOR RESIDUE CD F1168
28	DC1	SOFTWARE	HIS C:119 , PHE F:108 , TRP F:112 , HIS F:119 , SO4 F:1165 , CD F:1168 , HOH F:2128 , HOH F:2162	BINDING SITE FOR RESIDUE CL F1169
29	DC2	SOFTWARE	HIS G:123 , SER G:136 , LYS G:137 , GLY G:138 , CYS G:139 , ARG G:141 , CD G:1168 , CL G:1169 , HOH G:2133 , HOH G:2160 , HOH G:2161	BINDING SITE FOR RESIDUE SO4 G1165
30	DC3	SOFTWARE	ARG C:159 , TYR G:96 , ARG G:159 , HOH G:2005	BINDING SITE FOR RESIDUE SO4 G1166
31	DC4	SOFTWARE	ASN G:127 , ARG G:141 , HOH G:2136	BINDING SITE FOR RESIDUE SO4 G1167
32	DC5	SOFTWARE	CYS G:139 , SO4 G:1165 , CL G:1169 , HOH G:2133	BINDING SITE FOR RESIDUE CD G1168
33	DC6	SOFTWARE	PHE G:108 , TRP G:112 , HIS G:119 , SO4 G:1165 , CD G:1168 , HOH G:2102 , HOH G:2133	BINDING SITE FOR RESIDUE CL G1169
34	DC7	SOFTWARE	HIS A:119 , HIS H:123 , SER H:136 , LYS H:137 , GLY H:138 , CYS H:139 , ARG H:141 , CD H:1168 , CL H:1169 , HOH H:2136 , HOH H:2166	BINDING SITE FOR RESIDUE SO4 H1165
35	DC8	SOFTWARE	ASN D:73 , ARG D:159 , HOH D:2114 , TYR H:96 , ARG H:159 , HOH H:2004 , HOH H:2112 , HOH H:2167	BINDING SITE FOR RESIDUE SO4 H1166
36	DC9	SOFTWARE	ASN H:127 , ARG H:141 , HOH H:2139 , HOH H:2168	BINDING SITE FOR RESIDUE SO4 H1167
37	EC1	SOFTWARE	HIS A:119 , CYS H:139 , SO4 H:1165 , CL H:1169 , HOH H:2136	BINDING SITE FOR RESIDUE CD H1168
38	EC2	SOFTWARE	HIS A:119 , LYS A:137 , PHE H:108 , TRP H:112 , HIS H:119 , SO4 H:1165 , CD H:1168 , HOH H:2136	BINDING SITE FOR RESIDUE CL H1169

(no "SS Bond" information available for 4A1I)

(no "Cis Peptide Bond" information available for 4A1I)

(no "SAP(SNP)/Variant" information available for 4A1I)

Asymmetric Unit (1, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LYSM	PS51782	LysM domain profile.	YKUD_BACSU	2-45	8	A:2-45 B:2-45 C:2-45 D:2-45 E:2-45 F:2-45 G:2-45 H:2-45

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LYSM	PS51782	LysM domain profile.	YKUD_BACSU	2-45	2	A:2-45 - - - - - - H:2-45

Biological Unit 2 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LYSM	PS51782	LysM domain profile.	YKUD_BACSU	2-45	2	- B:2-45 - - - - G:2-45 -

Biological Unit 3 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LYSM	PS51782	LysM domain profile.	YKUD_BACSU	2-45	2	- B:2-45 - - - - G:2-45 -

Biological Unit 4 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LYSM	PS51782	LysM domain profile.	YKUD_BACSU	2-45	2	- - C:2-45 - - F:2-45 - -

Biological Unit 5 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	LYSM	PS51782	LysM domain profile.	YKUD_BACSU	2-45	2	- - - D:2-45 E:2-45 - - -

(no "Exon" information available for 4A1I)

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:165
 aligned with YKUD_BACSU | O34816 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:165
                             1                                                                                                                                                                   
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159     
           YKUD_BACSU     - -MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSKQHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
               SCOP domains d4a1ia1 A:0-48 automated matches                 d4a1ia2 A:49-164 automated matches                                                                                   SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....hhhhhhhhhh.hhhhhhhhhhhhhhh.....eeee..........eeeeee....eeeeee..eeeeeee..ee........eeeeeeeeee..hhhhh.eeeee.....eee...hhhhh..eee...ee.hhhhhhhhhhhh....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --LYSM  PDB: A:2-45 UniProt: 2-45             ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1i A   0 GMLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSAAHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159

Chain B from PDB  Type:PROTEIN  Length:165
 aligned with YKUD_BACSU | O34816 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:165
                             1                                                                                                                                                                   
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159     
           YKUD_BACSU     - -MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSKQHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
               SCOP domains d4a1ib1 B:0-48 automated matches                 d4a1ib2 B:49-164 automated matches                                                                                   SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....hhhhhhhhh..hhhhhhhhhhhhhhh.....eeee....hhhhh.eeeeee....eeeeee..eeeeeee..ee........eeeeeeeeee..hhhhh.eeeee.....eee...hhhhh..eee...ee.hhhhhhhhhhhh....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --LYSM  PDB: B:2-45 UniProt: 2-45             ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1i B   0 GMLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSAAHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159

Chain C from PDB  Type:PROTEIN  Length:165
 aligned with YKUD_BACSU | O34816 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:165
                             1                                                                                                                                                                   
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159     
           YKUD_BACSU     - -MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSKQHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
               SCOP domains d4a1ic1 C:0-48 automated matches                 d4a1ic2 C:49-164 automated matches                                                                                   SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....hhhhhhhhhh.hhhhhhhhhhhhhhh.....eeee....hhhhh.eeeeee....eeeeee..eeeeeee..ee........eeeeeeeeee..hhhhh.eeeee.....eee...hhhhh..eee...ee.hhhhhhhhhhhh....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --LYSM  PDB: C:2-45 UniProt: 2-45             ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1i C   0 GMLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSAAHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159

Chain D from PDB  Type:PROTEIN  Length:165
 aligned with YKUD_BACSU | O34816 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:165
                             1                                                                                                                                                                   
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159     
           YKUD_BACSU     - -MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSKQHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
               SCOP domains d4a1id1 D:0-48 automated matches                 d4a1id2 D:49-164 automated matches                                                                                   SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....hhhhhhhhh..hhhhhhhhhhhhhhh.....eeee....hhhhh.eeeeee....eeeeee..eeeeeee..ee........eeeeeeeeee..hhhhh.eeeee.....eee...hhhhh..eee...ee.hhhhhhhhhhhh....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --LYSM  PDB: D:2-45 UniProt: 2-45             ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1i D   0 GMLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSAAHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159

Chain E from PDB  Type:PROTEIN  Length:164
 aligned with YKUD_BACSU | O34816 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:164
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160    
           YKUD_BACSU     1 MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSKQHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
               SCOP domains d4a1ie1 E:1-48 automated matches                d4a1ie2 E:49-164 automated matches                                                                                   SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.....hhhhhhhhhh.hhhhhhhhhhhhhhh.....eee.....hhhhh.eeeeee....eeeeee..eeeeeee..ee........eeeeeeeeee..hhhhh.eeeee.....eee...hhhhh..eee...ee.hhhhhhhhhhhh....eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -LYSM  PDB: E:2-45 UniProt: 2-45             ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1i E   1 MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSAAHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160

Chain F from PDB  Type:PROTEIN  Length:164
 aligned with YKUD_BACSU | O34816 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:164
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160    
           YKUD_BACSU     1 MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSKQHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
               SCOP domains d4a1if1 F:1-48 automated matches                d4a1if2 F:49-164 automated matches                                                                                   SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.....hhhhhhhhhh.hhhhhhhhhhhhhhh.....eee.....hhhhh.eeeeee....eeeeee..eeeeeee..ee........eeeeeeeeee..hhhhh.eeeee.....eee...hhhhh..eee...ee.hhhhhhhhhhhh....eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -LYSM  PDB: F:2-45 UniProt: 2-45             ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1i F   1 MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSAAHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160

Chain G from PDB  Type:PROTEIN  Length:164
 aligned with YKUD_BACSU | O34816 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:164
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160    
           YKUD_BACSU     1 MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSKQHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
               SCOP domains d4a1ig1 G:1-48 automated matches                d4a1ig2 G:49-164 automated matches                                                                                   SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.....hhhhhhhhhh.hhhhhhhhhhhhhhh.....eee.....hhhhh.eeeeee....eeeeee..eeeeeee..ee........eeeeeeeeee..hhhhh.eeeee.....eee...hhhhh..eee...ee.hhhhhhhhhhhh....eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -LYSM  PDB: G:2-45 UniProt: 2-45             ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1i G   1 MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSAAHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160

Chain H from PDB  Type:PROTEIN  Length:164
 aligned with YKUD_BACSU | O34816 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:164
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160    
           YKUD_BACSU     1 MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSKQHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
               SCOP domains d4a1ih1 H:1-48 automated matches                d4a1ih2 H:49-164 automated matches                                                                                   SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.....hhhhhhhhhh.hhhhhhhhhhhhhhh.....eee.....hhhhh.eeeeee....eeeeee..eeeeeee..ee........eeeeeeeeee..hhhhh.eeeee.....eee...hhhhh..eee...ee.hhhhhhhhhhhh....eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -LYSM  PDB: H:2-45 UniProt: 2-45             ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4a1i H   1 MLTYQVKQGDTLNSIAADFRISTAALLQANPSLQAGLTAGQSIVIPGLPDPYTIPYHIAVSIGAKTLTLSLNNRVMKTYPIAVGKILTQTPTGEFYIINRQRNPGGPFGAYWLSLSAAHYGIHGTNNPASIGKAVSKGCIRMHNKDVIELASIVPNGTRVTINR 164
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160

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: All beta proteins (24004)

Fold: L,D-transpeptidase catalytic domain-like (8)

Superfamily: L,D-transpeptidase catalytic domain-like (8)

Family: L,D-transpeptidase catalytic domain-like (8)

Protein domain: automated matches (5)

Bacillus subtilis [TaxId: 1423] (3)

1a	d4a1ia2	A:49-164
1b	d4a1ib2	B:49-164
1c	d4a1ic2	C:49-164
1d	d4a1id2	D:49-164
1e	d4a1ie2	E:49-164
1f	d4a1if2	F:49-164
1g	d4a1ig2	G:49-164
1h	d4a1ih2	H:49-164

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

Fold: LysM domain (7)

Superfamily: LysM domain (7)

Family: automated matches (5)

Protein domain: automated matches (5)

Bacillus subtilis [TaxId: 1423] (3)

2a	d4a1ia1	A:0-48
2b	d4a1ib1	B:0-48
2c	d4a1ic1	C:0-48
2d	d4a1id1	D:0-48
2e	d4a1ie1	E:1-48
2f	d4a1if1	F:1-48
2g	d4a1ig1	G:1-48
2h	d4a1ih1	H:1-48

(no "CATH Domain" information available for 4A1I)

(no "Pfam Domain" information available for 4A1I)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D,E,F,G,H (YKUD_BACSU | O34816)

molecular function
	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:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
	GO:0016757	transferase activity, transferring glycosyl groups	Catalysis of the transfer of a glycosyl group from one compound (donor) to another (acceptor).
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.
	GO:0030435	sporulation resulting in formation of a cellular spore	The process in which a relatively unspecialized cell acquires the specialized features of a cellular spore, a cell form that can be used for dissemination, for survival of adverse conditions because of its heat and dessication resistance, and/or for reproduction.
cellular component
	GO:0031160	spore wall	The specialized envelope lying outside the cell membrane of a spore.

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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 4a1i)

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	4a1i
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	YKUD_BACSU \| O34816	:	1y7m 2mtz 3zqd 4a1j 4a1k 4a52

1y7m	CRYSTAL STRUCTURE OF THE B. SUBTILIS YKUD PROTEIN AT 2 ARESOLUTION
3zqd	B. SUBTILIS L,D-TRANSPEPTIDASE
4a1j	YKUD L,D-TRANSPEPTIDASE FROM B.SUBTILIS RELATED ENTRIES
4a1k	YKUD L,D-TRANSPEPTIDASE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 38)

Sites (38, 38)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 8)

Exons (0, 0)

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SCOP Domains (2, 16)

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