2ZC5 - 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)

Title :   PENICILLIN-BINDING PROTEIN 1A (PBP 1A) ACYL-ENZYME COMPLEX (BIAPENEM) FROM STREPTOCOCCUS PNEUMONIAE

Authors :   M. Yamada, T. Watanabe, Y. Takeuchi

Date :   02 Nov 07 (Deposition) - 08 Apr 08 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.00

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

Keywords :   Peptidoglycan Synthesis, Cell Wall, Penicillin-Binding, Antibiotics, Biapenem, Antibiotic Resistance, Cell Shape, Cell Wall Biogenesis/Degradation, Multifunctional Enzyme, Secreted, Biosynthetic Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Yamada, T. Watanabe, N. Baba, Y. Takeuchi, F. Ohsawa, S. Gomi
Crystal Structures Of Biapenem And Tebipenem Complexed With Penicillin-Binding Proteins 2X And 1A From Streptococcus Pneumoniae
Antimicrob. Agents Chemother. V. 52 2053 2008
PubMed-ID: 18391040 | Reference-DOI: 10.1128/AAC.01456-07
(for further references see the PDB file header)

Molecule 1 - PENICILLIN-BINDING PROTEIN 1A
	Chains	:	A, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PGEX-4T-1
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 47-70
	Gene	:	PBPA, EXP2
	Organism Scientific	:	STREPTOCOCCUS PNEUMONIAE
	Other Details	:	TRANSGLYCOSYLASE DOMAIN
	Synonym	:	PBP-1A, EXPORTED PROTEIN 2

Molecule 2 - PENICILLIN-BINDING PROTEIN 1A
	Chains	:	B, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PGEX-4T-1
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 264-653
	Gene	:	PBP1A
	Mutation	:	YES
	Organism Scientific	:	STREPTOCOCCUS PNEUMONIAE
	Other Details	:	TRANSPEPTIDASE DOMAIN

		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 (2, 10)

No.	Name	Count	Type	Full Name
1	BMG	2	Ligand/Ion	(4R,5S)-3-(6,7-DIHYDRO-5H-PYRAZOLO[1,2-A][1,2,4]TRIAZOL-4-IUM-6-YLSULFANYL)-5-[(1S,2R)-1-FORMYL-2-HYDROXYPROPYL]-4-METHYL-4,5-DIHYDRO-1H-PYRROLE-2-CARBOXYLATE
2	ZN	8	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	BMG	1	Ligand/Ion	(4R,5S)-3-(6,7-DIHYDRO-5H-PYRAZOLO[1,2-A][1,2,4]TRIAZOL-4-IUM-6-YLSULFANYL)-5-[(1S,2R)-1-FORMYL-2-HYDROXYPROPYL]-4-METHYL-4,5-DIHYDRO-1H-PYRROLE-2-CARBOXYLATE
2	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	BMG	1	Ligand/Ion	(4R,5S)-3-(6,7-DIHYDRO-5H-PYRAZOLO[1,2-A][1,2,4]TRIAZOL-4-IUM-6-YLSULFANYL)-5-[(1S,2R)-1-FORMYL-2-HYDROXYPROPYL]-4-METHYL-4,5-DIHYDRO-1H-PYRROLE-2-CARBOXYLATE
2	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (10, 10)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS B:309 , TYR B:319 , GLU B:514	BINDING SITE FOR RESIDUE ZN B 801
02	AC2	SOFTWARE	HIS B:395 , GLU B:397 , GLU B:435	BINDING SITE FOR RESIDUE ZN B 802
03	AC3	SOFTWARE	HIS B:460 , GLU D:566 , HIS D:571	BINDING SITE FOR RESIDUE ZN B 803
04	AC4	SOFTWARE	GLU B:318 , TYR B:319 , HIS B:503	BINDING SITE FOR RESIDUE ZN B 804
05	AC5	SOFTWARE	HIS D:309 , ASP D:312 , TYR D:319 , GLU D:514	BINDING SITE FOR RESIDUE ZN D 805
06	AC6	SOFTWARE	HIS D:395 , GLU D:397 , GLU D:435	BINDING SITE FOR RESIDUE ZN D 806
07	AC7	SOFTWARE	GLU B:566 , HIS B:571 , HIS D:460	BINDING SITE FOR RESIDUE ZN D 807
08	AC8	SOFTWARE	GLU D:318 , TYR D:319 , LYS D:504 , GLU D:512	BINDING SITE FOR RESIDUE ZN D 808
09	AC9	SOFTWARE	SER B:370 , TRP B:411 , SER B:428 , ASN B:430 , ILE B:465 , THR B:543 , LYS B:557 , THR B:558 , GLY B:559 , THR B:560	BINDING SITE FOR RESIDUE BMG B 701
10	BC1	SOFTWARE	SER D:370 , TRP D:411 , SER D:428 , ASN D:430 , THR D:543 , LYS D:557 , THR D:558 , GLY D:559 , THR D:560	BINDING SITE FOR RESIDUE BMG D 701

(no "SS Bond" information available for 2ZC5)

(no "Cis Peptide Bond" information available for 2ZC5)

Asymmetric Unit (5, 10)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PBPA_STRPN_001 *	V	386	I	PBPA_STRPN	---	---	B/D	V	386	I
2	UniProt	VAR_PBPA_STRPN_002 *	E	397	K	PBPA_STRPN	---	---	B/D	E	397	K
3	UniProt	VAR_PBPA_STRPN_003 *	M	523	I	PBPA_STRPN	---	---	B/D	M	523	I
4	UniProt	VAR_PBPA_STRPN_004 *	D	533	E	PBPA_STRPN	---	---	B/D	D	533	E
5	UniProt	VAR_PBPA_STRPN_005 *	T	540	S	PBPA_STRPN	---	---	B/D	S	540	S
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (5, 5)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PBPA_STRPN_001 *	V	386	I	PBPA_STRPN	---	---	B	V	386	I
2	UniProt	VAR_PBPA_STRPN_002 *	E	397	K	PBPA_STRPN	---	---	B	E	397	K
3	UniProt	VAR_PBPA_STRPN_003 *	M	523	I	PBPA_STRPN	---	---	B	M	523	I
4	UniProt	VAR_PBPA_STRPN_004 *	D	533	E	PBPA_STRPN	---	---	B	D	533	E
5	UniProt	VAR_PBPA_STRPN_005 *	T	540	S	PBPA_STRPN	---	---	B	S	540	S
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 2 (5, 5)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_PBPA_STRPN_001 *	V	386	I	PBPA_STRPN	---	---	D	V	386	I
2	UniProt	VAR_PBPA_STRPN_002 *	E	397	K	PBPA_STRPN	---	---	D	E	397	K
3	UniProt	VAR_PBPA_STRPN_003 *	M	523	I	PBPA_STRPN	---	---	D	M	523	I
4	UniProt	VAR_PBPA_STRPN_004 *	D	533	E	PBPA_STRPN	---	---	D	D	533	E
5	UniProt	VAR_PBPA_STRPN_005 *	T	540	S	PBPA_STRPN	---	---	D	S	540	S
	* ID not provided by source

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(no "PROSITE Motif" information available for 2ZC5)

(no "Exon" information available for 2ZC5)

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:16
 aligned with PBPA_STRPN | Q04707 from UniProtKB/Swiss-Prot  Length:719

    Alignment length:16
                                    60      
           PBPA_STRPN    51 TSSKIYDNKNQLIADL  66
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author ...eee.....eeee. Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                 2zc5 A  51 TSSKIYDNKNQLIADL  66
                                    60

Chain A from PDB  Type:PROTEIN  Length:16
 aligned with PBPA_STRR6 | Q8DR59 from UniProtKB/Swiss-Prot  Length:719

    Alignment length:16
                                    60      
           PBPA_STRR6    51 TSSKIYDNKNQLIADL  66
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
               Pfam domains ---------------- Pfam domains
         Sec.struct. author ...eee.....eeee. Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                 2zc5 A  51 TSSKIYDNKNQLIADL  66
                                    60

Chain B from PDB  Type:PROTEIN  Length:384
 aligned with PBPA_STRPN | Q04707 from UniProtKB/Swiss-Prot  Length:719

    Alignment length:384
                                   276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646    
           PBPA_STRPN   267 NYPAYMDNYLKEVINQVEEETGYNLLTTGMDVYTNVDQEAQKHLWDIYNTDEYVAYPDDELQVASTIVDVSNGKVIAQLGARHQSSNVSFGINQAVETNRDWGSTMKPITDYAPALEYGVYDSTATIVHDEPYNYPGTNTPVYNWDRGYFGNITLQYALQQSRNVPAVETLNKVGLNRAKTFLNGLGIDYPSIHYSNAISSNTTESDKKYGASSEKMAAAYAAFANGGTYYKPMYIHKVVFSDGSEKEFSNVGTRAMKETTAYMMTDMMKTVLTYGTGRNAYLAWLPQAGKTGTSNYTDEEIENHIKTSQFVAPDELFAGYTRKYSMAVWTGYSNRLTPLVGNGLTVAAKVYRSMMTYLSEGSNPEDWNIPEGLYRNGEFVFKN 650
               SCOP domains d2zc5b_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhh........eeeee..hhhhhhhhhhhhh............eeeeeeee.....eeeee......................hhhhhhhhhhhhhhhhh........eeee....................eeeehhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh........hhhhhhh............hhhhhhhhhhhhhhh.eee....eeeeee....eee....eee..hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeee...hhhhhhhh......ee.eeeeeeee..eeeeeeee.......ee.hhhhhhhhhhhhhhhhhhh.............eee..eee.. Sec.struct. author
                 SAPs(SNPs) -----------------------------------------------------------------------------------------------------------------------I----------K-----------------------------------------------------------------------------------------------------------------------------I---------E------S-------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2zc5 B 267 NYPAYMDNYLKEVINQVEEETGYNLLTTGMDVYTNVDQEAQKHLWDIYNTDEYVAYPDDELQVASTIVDVSNGKVIAQLGARHQSSNVSFGINQAVETNRDWGSTMKPITDYAPALEYGVYDSTATIVHDEPYNYPGTNTPVYNWDRGYFGNITLQYALQQSRNVPAVETLNKVGLNRAKTFLNGLGIDYPSIHYSNAISSNTTESDKKYGASSEKMAAAYAAFANGGTYYKPMYIHKVVFSDGSEKEFSNVGTRAMKETTAYMMTDMMKTVLSYGTGQNAYLAWLPQAGKTGTSNYTDEEIENHIKTSQFVAPDELFAGYTRKYSMAVWTGYSNRLTPLVGNGLTVAAKVYRSMMTYLSEGSNPEDWNIPEGLYRNGEFVFKN 650
                                   276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646

Chain B from PDB  Type:PROTEIN  Length:384
 aligned with Q549Y6_STREE | Q549Y6 from UniProtKB/TrEMBL  Length:719

    Alignment length:384
                                   276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646    
         Q549Y6_STREE   267 NYPAYMDNYLKEVINQVEEETGYNLLTTGMDVYTNVDQEAQKHLWDIYNTDEYVAYPDDELQVASTIVDVSNGKVIAQLGARHQSSNVSFGINQAVETNRDWGSTMKPITDYAPALEYGVYDSTATIVHDEPYNYPGTNTPVYNWDRGYFGNITLQYALQQSRNVPAVETLNKVGLNRAKTFLNGLGIDYPSIHYSNAISSNTTESDKKYGASSEKMAAAYAAFANGGTYYKPMYIHKVVFSDGSEKEFSNVGTRAMKETTAYMMTDMMKTVLSYGTGRNAYLAWLPQAGKTGTSNYTDEEIENHIKTSQFVAPDELFAGYTRKYSMAVWTGYSNRLTPLVGNGLTVAAKVYRSMMTYLSEGSNPEDWNIPEGLYRNGEFVFKN 650
               SCOP domains d2zc5b_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhh........eeeee..hhhhhhhhhhhhh............eeeeeeee.....eeeee......................hhhhhhhhhhhhhhhhh........eeee....................eeeehhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh........hhhhhhh............hhhhhhhhhhhhhhh.eee....eeeeee....eee....eee..hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeee...hhhhhhhh......ee.eeeeeeee..eeeeeeee.......ee.hhhhhhhhhhhhhhhhhhh.............eee..eee.. Sec.struct. author
                 SAPs(SNPs) -----------------------------------------------------------------------------------------------------------------------I----------K-----------------------------------------------------------------------------------------------------------------------------I---------E------S-------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2zc5 B 267 NYPAYMDNYLKEVINQVEEETGYNLLTTGMDVYTNVDQEAQKHLWDIYNTDEYVAYPDDELQVASTIVDVSNGKVIAQLGARHQSSNVSFGINQAVETNRDWGSTMKPITDYAPALEYGVYDSTATIVHDEPYNYPGTNTPVYNWDRGYFGNITLQYALQQSRNVPAVETLNKVGLNRAKTFLNGLGIDYPSIHYSNAISSNTTESDKKYGASSEKMAAAYAAFANGGTYYKPMYIHKVVFSDGSEKEFSNVGTRAMKETTAYMMTDMMKTVLSYGTGQNAYLAWLPQAGKTGTSNYTDEEIENHIKTSQFVAPDELFAGYTRKYSMAVWTGYSNRLTPLVGNGLTVAAKVYRSMMTYLSEGSNPEDWNIPEGLYRNGEFVFKN 650
                                   276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646

Chain C from PDB  Type:PROTEIN  Length:16
 aligned with PBPA_STRPN | Q04707 from UniProtKB/Swiss-Prot  Length:719

    Alignment length:16
                                    60      
           PBPA_STRPN    51 TSSKIYDNKNQLIADL  66
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
           Pfam domains (1) --------Transgly Pfam domains (1)
           Pfam domains (2) --------Transgly Pfam domains (2)
         Sec.struct. author ...eee.....eeee. Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                 2zc5 C  51 TSSKIYDNKNQLIADL  66
                                    60

Chain C from PDB  Type:PROTEIN  Length:16
 aligned with PBPA_STRR6 | Q8DR59 from UniProtKB/Swiss-Prot  Length:719

    Alignment length:16
                                    60      
           PBPA_STRR6    51 TSSKIYDNKNQLIADL  66
               SCOP domains ---------------- SCOP domains
               CATH domains ---------------- CATH domains
           Pfam domains (1) --------Transgly Pfam domains (1)
           Pfam domains (2) --------Transgly Pfam domains (2)
         Sec.struct. author ...eee.....eeee. Sec.struct. author
                 SAPs(SNPs) ---------------- SAPs(SNPs)
                    PROSITE ---------------- PROSITE
                 Transcript ---------------- Transcript
                 2zc5 C  51 TSSKIYDNKNQLIADL  66
                                    60

Chain D from PDB  Type:PROTEIN  Length:384
 aligned with PBPA_STRPN | Q04707 from UniProtKB/Swiss-Prot  Length:719

    Alignment length:384
                                   276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646    
           PBPA_STRPN   267 NYPAYMDNYLKEVINQVEEETGYNLLTTGMDVYTNVDQEAQKHLWDIYNTDEYVAYPDDELQVASTIVDVSNGKVIAQLGARHQSSNVSFGINQAVETNRDWGSTMKPITDYAPALEYGVYDSTATIVHDEPYNYPGTNTPVYNWDRGYFGNITLQYALQQSRNVPAVETLNKVGLNRAKTFLNGLGIDYPSIHYSNAISSNTTESDKKYGASSEKMAAAYAAFANGGTYYKPMYIHKVVFSDGSEKEFSNVGTRAMKETTAYMMTDMMKTVLTYGTGRNAYLAWLPQAGKTGTSNYTDEEIENHIKTSQFVAPDELFAGYTRKYSMAVWTGYSNRLTPLVGNGLTVAAKVYRSMMTYLSEGSNPEDWNIPEGLYRNGEFVFKN 650
               SCOP domains d2zc5d_ D: automated matches                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) --------------------------------------------------------------Transpeptidase-2zc5D01 D:329-623                                                                                                                                                                                                                                                                       --------------------------- Pfam domains (1)
           Pfam domains (2) --------------------------------------------------------------Transpeptidase-2zc5D02 D:329-623                                                                                                                                                                                                                                                                       --------------------------- Pfam domains (2)
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhh.......eeeee..hhhhhhhhhhhhhh...........eeeeeeee.....eeeee......................hhhhhhhhhhhhhhhhh........eeee....................eeeehhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhh.............hhhhhhhhhhhhhh..ee.....eeeeee....eee.....ee..hhhhhhhhhhhhhhhh...............eeeeee...hhhhhhhh......ee..eeeeee...eeeeeeee.......ee.hhhhhhhhhhhhhhhhhhh............eeee..eeee. Sec.struct. author
                 SAPs(SNPs) -----------------------------------------------------------------------------------------------------------------------I----------K-----------------------------------------------------------------------------------------------------------------------------I---------E------S-------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2zc5 D 267 NYPAYMDNYLKEVINQVEEETGYNLLTTGMDVYTNVDQEAQKHLWDIYNTDEYVAYPDDELQVASTIVDVSNGKVIAQLGARHQSSNVSFGINQAVETNRDWGSTMKPITDYAPALEYGVYDSTATIVHDEPYNYPGTNTPVYNWDRGYFGNITLQYALQQSRNVPAVETLNKVGLNRAKTFLNGLGIDYPSIHYSNAISSNTTESDKKYGASSEKMAAAYAAFANGGTYYKPMYIHKVVFSDGSEKEFSNVGTRAMKETTAYMMTDMMKTVLSYGTGQNAYLAWLPQAGKTGTSNYTDEEIENHIKTSQFVAPDELFAGYTRKYSMAVWTGYSNRLTPLVGNGLTVAAKVYRSMMTYLSEGSNPEDWNIPEGLYRNGEFVFKN 650
                                   276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646

Chain D from PDB  Type:PROTEIN  Length:384
 aligned with Q549Y6_STREE | Q549Y6 from UniProtKB/TrEMBL  Length:719

    Alignment length:384
                                   276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646    
         Q549Y6_STREE   267 NYPAYMDNYLKEVINQVEEETGYNLLTTGMDVYTNVDQEAQKHLWDIYNTDEYVAYPDDELQVASTIVDVSNGKVIAQLGARHQSSNVSFGINQAVETNRDWGSTMKPITDYAPALEYGVYDSTATIVHDEPYNYPGTNTPVYNWDRGYFGNITLQYALQQSRNVPAVETLNKVGLNRAKTFLNGLGIDYPSIHYSNAISSNTTESDKKYGASSEKMAAAYAAFANGGTYYKPMYIHKVVFSDGSEKEFSNVGTRAMKETTAYMMTDMMKTVLSYGTGRNAYLAWLPQAGKTGTSNYTDEEIENHIKTSQFVAPDELFAGYTRKYSMAVWTGYSNRLTPLVGNGLTVAAKVYRSMMTYLSEGSNPEDWNIPEGLYRNGEFVFKN 650
               SCOP domains d2zc5d_ D: automated matches                                                                                                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) --------------------------------------------------------------Transpeptidase-2zc5D01 D:329-623                                                                                                                                                                                                                                                                       --------------------------- Pfam domains (1)
           Pfam domains (2) --------------------------------------------------------------Transpeptidase-2zc5D02 D:329-623                                                                                                                                                                                                                                                                       --------------------------- Pfam domains (2)
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhh.......eeeee..hhhhhhhhhhhhhh...........eeeeeeee.....eeeee......................hhhhhhhhhhhhhhhhh........eeee....................eeeehhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhh.............hhhhhhhhhhhhhh..ee.....eeeeee....eee.....ee..hhhhhhhhhhhhhhhh...............eeeeee...hhhhhhhh......ee..eeeeee...eeeeeeee.......ee.hhhhhhhhhhhhhhhhhhh............eeee..eeee. Sec.struct. author
                 SAPs(SNPs) -----------------------------------------------------------------------------------------------------------------------I----------K-----------------------------------------------------------------------------------------------------------------------------I---------E------S-------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2zc5 D 267 NYPAYMDNYLKEVINQVEEETGYNLLTTGMDVYTNVDQEAQKHLWDIYNTDEYVAYPDDELQVASTIVDVSNGKVIAQLGARHQSSNVSFGINQAVETNRDWGSTMKPITDYAPALEYGVYDSTATIVHDEPYNYPGTNTPVYNWDRGYFGNITLQYALQQSRNVPAVETLNKVGLNRAKTFLNGLGIDYPSIHYSNAISSNTTESDKKYGASSEKMAAAYAAFANGGTYYKPMYIHKVVFSDGSEKEFSNVGTRAMKETTAYMMTDMMKTVLSYGTGQNAYLAWLPQAGKTGTSNYTDEEIENHIKTSQFVAPDELFAGYTRKYSMAVWTGYSNRLTPLVGNGLTVAAKVYRSMMTYLSEGSNPEDWNIPEGLYRNGEFVFKN 650
                                   276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436       446       456       466       476       486       496       506       516       526       536       546       556       566       576       586       596       606       616       626       636       646

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: Multi-domain proteins (alpha and beta) (2421)

Fold: beta-lactamase/transpeptidase-like (515)

Superfamily: beta-lactamase/transpeptidase-like (515)

Family: beta-Lactamase/D-ala carboxypeptidase (411)

Protein domain: automated matches (81)

Pneumococcus (Streptococcus pneumoniae) [TaxId: 1313] (3)

1a	d2zc5b_	B:
1b	d2zc5d_	D:

(no "CATH Domain" information available for 2ZC5)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Beta-lactamase (210)

Family: Transpeptidase (31)

Streptococcus pneumoniae (9)

1a	Transpeptidase-2zc5D01	D:329-623
1b	Transpeptidase-2zc5D02	D:329-623

Clan: no clan defined [family: Transgly] (8)

Family: Transgly (8)

Streptococcus pneumoniae (2)

2a	Transgly-2zc5C01	C:59-66
2b	Transgly-2zc5C02	C:59-66

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (PBPA_STRPN | Q04707)

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.
	GO:0008658	penicillin binding	Interacting selectively and non-covalently with penicillin, any antibiotic that contains the condensed beta-lactamthiazolidine ring system.
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:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
	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:0046677	response to antibiotic	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Chain A,C (PBPA_STRR6 | Q8DR59)

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.
	GO:0008658	penicillin binding	Interacting selectively and non-covalently with penicillin, any antibiotic that contains the condensed beta-lactamthiazolidine ring system.
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:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
	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:0046677	response to antibiotic	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Chain B,D (Q549Y6_STREE | Q549Y6)

molecular function
	GO:0008658	penicillin binding	Interacting selectively and non-covalently with penicillin, any antibiotic that contains the condensed beta-lactamthiazolidine ring system.
cellular component
	GO:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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	Cis Peptide Bonds
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	2zc5
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		Structural Genomics	:	GeneCensus
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Access by UniProt ID/Accession number
	PBPA_STRPN \| Q04707
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt
	PBPA_STRR6 \| Q8DR59
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt
	Q549Y6_STREE \| Q549Y6
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

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Access by UniProt ID/Accession number
	PBPA_STRPN \| Q04707
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)
	PBPA_STRR6 \| Q8DR59
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)
	Q549Y6_STREE \| Q549Y6
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	PBPA_STRPN \| Q04707	:	2zc6
	PBPA_STRR6 \| Q8DR59	:	2c5w 2c6w 2v2f 2zc6
	Q549Y6_STREE \| Q549Y6	:	2zc6

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 10)

Sites (10, 10)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (5, 10)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (0, 0)

Pfam Domains (2, 4)

Gene Ontology (10, 19)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File