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Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6IYW

Crystal sturucture of L,D-transpeptidase LdtMt2 from Mycobacterium tuberculosis in complex with Imipenem adduct

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0016740	molecular_function	transferase activity
B	0016740	molecular_function	transferase activity
C	0016740	molecular_function	transferase activity
D	0016740	molecular_function	transferase activity
E	0016740	molecular_function	transferase activity
F	0016740	molecular_function	transferase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	11
Details	binding site for residue IM2 A 501

Chain	Residue
A	MET303
A	HOH740
A	HOH756
A	TYR308
A	TYR318
A	SER331
A	GLY332
A	HIS352
A	GLY353
A	CYS354
A	HOH603

site_id	AC2
Number of Residues	10
Details	binding site for residue GOL A 502

Chain	Residue
A	THR191
A	THR192
A	ASN193
A	ALA221
A	ASP223
A	HIS246
A	HOH607
D	VAL272
D	HOH691
D	HOH728

site_id	AC3
Number of Residues	5
Details	binding site for residue GOL A 503

Chain	Residue
A	GLU213
A	HIS214
A	PHE215
A	ILE291
A	HOH612

site_id	AC4
Number of Residues	5
Details	binding site for residue GOL A 504

Chain	Residue
A	SER146
A	GLU240
A	HOH602
A	HOH618
A	HOH623

site_id	AC5
Number of Residues	3
Details	binding site for residue GOL A 505

Chain	Residue
A	GLN327
A	TYR330
A	HOH799

site_id	AC6
Number of Residues	8
Details	binding site for residue GOL A 506

Chain	Residue
A	GLU197
A	TRP398
A	ASP399
A	ARG402
A	HOH733
B	LYS262
B	HIS347
B	HOH800

site_id	AC7
Number of Residues	6
Details	binding site for residue GOL B 502

Chain	Residue
B	GLU213
B	HIS214
B	PHE215
B	ILE291
B	HOH797
B	HOH821

site_id	AC8
Number of Residues	9
Details	binding site for residue GOL B 503

Chain	Residue
B	MET157
B	GLU168
B	ALA171
B	TYR330
B	ARG371
B	LEU391
B	HOH619
B	HOH662
B	HOH774

site_id	AC9
Number of Residues	5
Details	binding site for residue GOL B 504

Chain	Residue
B	GLN327
B	TYR330
B	HOH604
B	HOH671
B	HOH764

site_id	AD1
Number of Residues	6
Details	binding site for residue GOL B 505

Chain	Residue
B	SER146
B	GLU240
B	HOH601
B	HOH608
B	HOH638
B	HOH796

site_id	AD2
Number of Residues	5
Details	binding site for residue GOL B 506

Chain	Residue
B	GLN144
B	THR145
B	PHE238
B	HOH617
B	HOH792

site_id	AD3
Number of Residues	5
Details	binding site for residue GOL B 507

Chain	Residue
B	PRO386
B	GLY387
B	ASN395
B	HOH606
B	HOH643

site_id	AD4
Number of Residues	6
Details	binding site for residue GOL C 502

Chain	Residue
C	GLU213
C	HIS214
C	PHE215
C	ILE291
C	HOH679
C	HOH726

site_id	AD5
Number of Residues	3
Details	binding site for residue GOL C 503

Chain	Residue
C	GLU197
C	GLY198
C	TRP210

site_id	AD6
Number of Residues	5
Details	binding site for residue GOL D 502

Chain	Residue
D	GLU213
D	HIS214
D	PHE215
D	ILE291
D	HOH722

site_id	AD7
Number of Residues	4
Details	binding site for residue GOL E 502

Chain	Residue
E	HIS214
E	PHE215
E	ILE291
E	HOH612

site_id	AD8
Number of Residues	9
Details	binding site for residue GOL E 503

Chain	Residue
B	ALA221
B	ASP223
E	VAL272
E	HOH651
E	HOH716
E	HOH740
B	THR191
B	THR192
B	ASN193

site_id	AD9
Number of Residues	7
Details	binding site for residue GOL E 504

Chain	Residue
E	MET157
E	GLU168
E	VAL294
E	ARG371
E	LEU391
E	HOH617
E	HOH660

site_id	AE1
Number of Residues	5
Details	binding site for residue GOL E 505

Chain	Residue
E	THR145
E	SER146
E	SER147
E	HOH601
E	HOH602

site_id	AE2
Number of Residues	6
Details	binding site for residue GOL E 506

Chain	Residue
E	GLY198
E	ALA199
E	TRP210
E	HOH680
F	ASN260
F	ASN379

site_id	AE3
Number of Residues	7
Details	binding site for residue GOL E 507

Chain	Residue
E	ILE190
E	THR191
E	THR192
E	PRO195
E	VAL196
E	GLU197
E	HOH668

site_id	AE4
Number of Residues	7
Details	binding site for residue GOL F 502

Chain	Residue
C	THR191
C	THR192
C	ASN193
C	HIS246
F	VAL272
F	HOH621
F	HOH624

site_id	AE5
Number of Residues	11
Details	binding site for residue GOL F 503

Chain	Residue
F	MET157
F	GLU168
F	ALA171
F	ARG209
F	TYR330
F	ARG371
F	GLY390
F	LEU391
F	HOH603
F	HOH623
F	HOH659

site_id	AE6
Number of Residues	3
Details	binding site for residue GOL F 504

Chain	Residue
F	HIS214
F	PHE215
F	HOH611

site_id	AE7
Number of Residues	5
Details	binding site for residue GOL F 505

Chain	Residue
F	THR384
F	LEU385
F	PRO386
F	GLY387
F	ASN395

site_id	AE8
Number of Residues	17
Details	binding site for Di-peptide IM2 B 501 and CYS B 354

Chain	Residue
B	SER279
B	MET280
B	MET303
B	TYR308
B	TYR318
B	SER331
B	GLY332
B	VAL333
B	PHE334
B	HIS336
B	SER351
B	HIS352
B	GLY353
B	LEU355
B	ASN356
B	HOH698
B	HOH773

site_id	AE9
Number of Residues	16
Details	binding site for Di-peptide IM2 C 501 and CYS C 354

Chain	Residue
C	SER279
C	MET280
C	MET303
C	TYR308
C	TYR318
C	SER331
C	GLY332
C	PHE334
C	HIS336
C	SER351
C	HIS352
C	GLY353
C	LEU355
C	ASN356
C	HOH706
C	HOH723

site_id	AF1
Number of Residues	15
Details	binding site for Di-peptide IM2 D 501 and CYS D 354

Chain	Residue
D	SER279
D	MET280
D	TYR308
D	TYR318
D	SER331
D	GLY332
D	PHE334
D	HIS336
D	SER351
D	HIS352
D	GLY353
D	LEU355
D	ASN356
D	HOH738
D	HOH747

site_id	AF2
Number of Residues	17
Details	binding site for Di-peptide IM2 E 501 and CYS E 354

Chain	Residue
E	SER279
E	MET280
E	TYR308
E	TYR318
E	SER331
E	GLY332
E	PHE334
E	HIS336
E	SER351
E	HIS352
E	GLY353
E	LEU355
E	ASN356
E	HOH623
E	HOH659
E	HOH689
E	HOH712

site_id	AF3
Number of Residues	17
Details	binding site for Di-peptide IM2 F 501 and CYS F 354

Chain	Residue
F	SER279
F	MET280
F	TYR308
F	TYR318
F	SER331
F	GLY332
F	PHE334
F	HIS336
F	SER351
F	HIS352
F	GLY353
F	LEU355
F	ASN356
F	HOH691
F	HOH707
F	HOH776
F	HOH784

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	6
Details	ACT_SITE: Proton donor/acceptor => ECO:0000255\|PROSITE-ProRule:PRU01373, ECO:0000305\|PubMed:23519417

Chain	Residue	Details
A	HIS336
B	HIS336
C	HIS336
D	HIS336
E	HIS336
F	HIS336

site_id	SWS_FT_FI2
Number of Residues	6
Details	ACT_SITE: Nucleophile => ECO:0000255\|PROSITE-ProRule:PRU01373, ECO:0000269\|PubMed:23519417

Chain	Residue	Details
A	CYS354
B	CYS354
C	CYS354
D	CYS354
E	CYS354
F	CYS354

site_id	SWS_FT_FI3
Number of Residues	18
Details	BINDING:

Chain	Residue	Details
C	ASP232
C	GLU235
C	GLY236
D	ASP232
D	GLU235
D	GLY236
E	ASP232
E	GLU235
E	GLY236
F	ASP232
F	GLU235
F	GLY236
B	ASP232
A	ASP232
A	GLU235
A	GLY236
B	GLU235
B	GLY236

site_id	SWS_FT_FI4
Number of Residues	18
Details	BINDING: BINDING => ECO:0000250

Chain	Residue	Details
E	TYR318
E	SER331
E	ASN356
F	TYR318
F	SER331
F	ASN356
A	TYR318
A	SER331
A	ASN356
B	TYR318
B	SER331
B	ASN356
C	TYR318
C	SER331
C	ASN356
D	TYR318
D	SER331
D	ASN356

site_id	SWS_FT_FI5
Number of Residues	6
Details	SITE: Binds to carbapenem drug (covalent)

Chain	Residue	Details
A	CYS354
B	CYS354
C	CYS354
D	CYS354
E	CYS354
F	CYS354

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PDB entries from 2024-06-12

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