254780698
D-alanyl-D-alanine carboxypeptidase 1 penicillin-binding protein
GeneID in NCBI database: | 8209702 | Locus tag: | CLIBASIA_02925 |
Protein GI in NCBI database: | 254780698 | Protein Accession: | YP_003065111.1 |
Gene range: | -(569522, 570532) | Protein Length: | 336aa |
Gene description: | D-alanyl-D-alanine carboxypeptidase 1 penicillin-binding protein | ||
COG prediction: | [M] D-alanyl-D-alanine carboxypeptidase | ||
KEGG prediction: | D-alanyl-D-alanine carboxypeptidase 1 penicillin-binding protein; K01286 D-alanyl-D-alanine carboxypeptidase [EC:3.4.16.4] | ||
SEED prediction: | D-alanyl-D-alanine carboxypeptidase (EC 3.4.16.4) | ||
Pathway involved in KEGG: | not defined | ||
Subsystem involved in SEED: | Murein Hydrolases;
Peptidoglycan Biosynthesis | ||
sequence | sequence profile |
Prediction of Local Sequence Properties
Source | Summary | Result |
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Close Homologs Detected by BLAST or PSI-BLAST
Homolog within the Genome Detected by BLAST
Original result of BLAST against C. L. asiaticus genome
Identity | Alignment graph | Length | Definition | E-value | |
Target | 336 | D-alanyl-D-alanine carboxypeptidase 1 penicillin-bindin | |||
254780435 | 336 | peptidase S11, D-alanyl-D-alanine carboxypeptidase | 3e-40 |
>gi|254780435|ref|YP_003064848.1| peptidase S11, D-alanyl-D-alanine carboxypeptidase 1 [Candidatus Liberibacter asiaticus str. psy62] Length = 336 | Back alignment |
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Score = 157 bits (397), Expect = 3e-40, Method: Compositional matrix adjust. Identities = 94/267 (35%), Positives = 141/267 (52%), Gaps = 12/267 (4%) Query: 36 FLSIIMISMAS---------ELHAKPKYSSIVIDVNKNQMTGFK-QDEPRYPASLTKMMT 85 FL II ++M S E + P Y+ ++D N + D P PASLTK+MT Sbjct: 4 FLVIIAMAMLSNIFPFLSIAETNKLPYYT--LLDTNTGHVIAENYPDHPWNPASLTKLMT 61 Query: 86 LYIIFEYLQSKKLHLNTQIPVSKTAATQNPSKLYLKEKTYFTTEQGILALITRSANDVST 145 Y++F +L+ KK L T I +SK A+ PS K+ + T + + LI +SAND++ Sbjct: 62 AYVVFSFLKEKKAMLTTPITISKNASEYPPSNSTFKKGSTMTLDNALKLLIVKSANDIAV 121 Query: 146 AFGEFISGSEKKFAILMSNKAKKIGMQNTIYKNASGLHDKNQITTARDQAILGILLRKNF 205 A E + +EKKF M+N +K +G+ T + NA G+ TTARD AIL ++ +F Sbjct: 122 AIAESLCKTEKKFVQHMNNTSKNLGLSATHFMNAHGVVQHGHYTTARDMAILSWRIKTDF 181 Query: 206 PQYYKYFSIRKFRYRNRIITNHNKLLNKMHNIDGIKTGYTRNSGFNIVTSLRYKDDPIVA 265 PQY YF I+ + + N N + DG+KTG+T SGFNIV S D ++A Sbjct: 182 PQYMHYFQIKGLEIKGKKYPNTNWAVGTFLGADGMKTGFTCASGFNIVASAIQGDQSLIA 241 Query: 266 VVMGMPTSQERDQKALELITSFLEKKT 292 V++G R++ + L++ KT Sbjct: 242 VILGALDRNTRNKVSASLLSMGFYNKT 268 |
Close Homologs Detected BLAST or PSI-BLAST in the First 2 Iterations
Original result of PSI-BLAST first 2 iterations
Identity | Alignment graph | Length | Definition | Round | E-value |
Target | 336 | D-alanyl-D-alanine carboxypeptidase 1 penicillin-bindin | |||
315121863 | 357 | D-alanyl-D-alanine carboxypeptidase 1 penicillin-bindin | 1 | 1e-123 | |
222148621 | 484 | D-alanyl-D-alanine carboxypeptidase 1 penicillin-bindin | 1 | 4e-70 | |
150396261 | 494 | Serine-type D-Ala-D-Ala carboxypeptidase [Sinorhizobium | 1 | 5e-69 | |
307321507 | 500 | Serine-type D-Ala-D-Ala carboxypeptidase [Sinorhizobium | 1 | 1e-68 | |
195970177 | 500 | hypothetical protein SMc00996 [Sinorhizobium meliloti 1 | 1 | 1e-68 | |
325292859 | 480 | D-alanyl-D-alanine carboxypeptidase [Agrobacterium sp. | 1 | 5e-68 | |
227821811 | 498 | penicillin-binding protein [Sinorhizobium fredii NGR234 | 1 | 1e-67 | |
218663522 | 430 | probable serine-type D-Ala-D-Ala carboxypeptidase prote | 1 | 2e-66 | |
116252287 | 523 | penicillin-binding protein/D-alanyl-D-alanine carboxype | 1 | 2e-65 | |
159184788 | 499 | penicillin-binding protein [Agrobacterium tumefaciens s | 1 | 2e-65 |
>gi|315121863|ref|YP_004062352.1| D-alanyl-D-alanine carboxypeptidase 1 penicillin-binding protein [Candidatus Liberibacter solanacearum CLso-ZC1] Length = 357 | Back alignment and organism information |
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Score = 446 bits (1147), Expect = e-123, Method: Compositional matrix adjust. Identities = 228/330 (69%), Positives = 266/330 (80%), Gaps = 3/330 (0%) Query: 1 MLQQKIQSSAKKTFLTYP--YGSIYIQRNIQLMGKILFLSIIMISMASELHAKPKYSSIV 58 MLQQ + KK FL Y Y S IQ +++ + KIL L II+ SMA + HAK +YSSIV Sbjct: 1 MLQQNTKYLEKKQFLEYVSVYRSFIIQESLRSLWKILLLCIILTSMALKSHAKLEYSSIV 60 Query: 59 IDV-NKNQMTGFKQDEPRYPASLTKMMTLYIIFEYLQSKKLHLNTQIPVSKTAATQNPSK 117 ID+ N + GFKQD+ RYPASLTKMMTLYIIFE+LQSKK+HLNT+IPVSKTA Q PSK Sbjct: 61 IDLLNDKRTNGFKQDKLRYPASLTKMMTLYIIFEHLQSKKMHLNTKIPVSKTATIQPPSK 120 Query: 118 LYLKEKTYFTTEQGILALITRSANDVSTAFGEFISGSEKKFAILMSNKAKKIGMQNTIYK 177 LYLKE T+FT EQGILALITRSANDVSTAFGEFISGSEKKFAILMSNKAK +GM +T YK Sbjct: 121 LYLKENTFFTVEQGILALITRSANDVSTAFGEFISGSEKKFAILMSNKAKSLGMNHTTYK 180 Query: 178 NASGLHDKNQITTARDQAILGILLRKNFPQYYKYFSIRKFRYRNRIITNHNKLLNKMHNI 237 NASGLHDKNQ TTARDQAILGI +RKNFPQYYKYFSIRKF+YRN+II NHNKL+NK+H I Sbjct: 181 NASGLHDKNQKTTARDQAILGITIRKNFPQYYKYFSIRKFQYRNKIILNHNKLINKIHGI 240 Query: 238 DGIKTGYTRNSGFNIVTSLRYKDDPIVAVVMGMPTSQERDQKALELITSFLEKKTLKHQQ 297 DGIKTGYTR+SGFNIV SL+ +++ I+AVVMGMPT Q+RDQKALELI SFL K KH+ Sbjct: 241 DGIKTGYTRDSGFNIVASLQNENNSIIAVVMGMPTCQKRDQKALELINSFLNTKKTKHKP 300 Query: 298 THRKDNLSSTSLKKSLMIKKLKRTYSQFKK 327 + NL+ + K+L+ +K+K + Q K Sbjct: 301 IWKSGNLTFSPTMKALITEKIKDSNQQLPK 330 |
Species: Candidatus Liberibacter solanacearum Genus: Candidatus Liberibacter Family: Rhizobiaceae Order: Rhizobiales Class: Alphaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
>gi|222148621|ref|YP_002549578.1| D-alanyl-D-alanine carboxypeptidase 1 penicillin-binding protein [Agrobacterium vitis S4] Length = 484 | Back alignment and organism information |
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>gi|150396261|ref|YP_001326728.1| Serine-type D-Ala-D-Ala carboxypeptidase [Sinorhizobium medicae WSM419] Length = 494 | Back alignment and organism information |
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>gi|307321507|ref|ZP_07600902.1| Serine-type D-Ala-D-Ala carboxypeptidase [Sinorhizobium meliloti AK83] Length = 500 | Back alignment and organism information |
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>gi|195970177|ref|NP_385517.2| hypothetical protein SMc00996 [Sinorhizobium meliloti 1021] Length = 500 | Back alignment and organism information |
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>gi|325292859|ref|YP_004278723.1| D-alanyl-D-alanine carboxypeptidase [Agrobacterium sp. H13-3] Length = 480 | Back alignment and organism information |
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>gi|227821811|ref|YP_002825781.1| penicillin-binding protein [Sinorhizobium fredii NGR234] Length = 498 | Back alignment and organism information |
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>gi|218663522|ref|ZP_03519452.1| probable serine-type D-Ala-D-Ala carboxypeptidase protein [Rhizobium etli IE4771] Length = 430 | Back alignment and organism information |
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>gi|116252287|ref|YP_768125.1| penicillin-binding protein/D-alanyl-D-alanine carboxypeptidase [Rhizobium leguminosarum bv. viciae 3841] Length = 523 | Back alignment and organism information |
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>gi|159184788|ref|NP_354511.2| penicillin-binding protein [Agrobacterium tumefaciens str. C58] Length = 499 | Back alignment and organism information |
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Conserved Domains in CDD Database
Detected by RPS-BLAST and HHsearch
Conserved Domains in CDD Database Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
Original result of RPS-BLASTagainst CDD database part II
Identity | Alignment graph | Length | Definition | E-value |
Target | 336 | D-alanyl-D-alanine carboxypeptidase 1 penicillin-bindin | ||
pfam00768 | 241 | pfam00768, Peptidase_S11, D-alanyl-D-alanine carboxypep | 6e-39 | |
PRK10793 | 403 | PRK10793, PRK10793, D-alanyl-D-alanine carboxypeptidase | 2e-35 | |
PRK10001 | 400 | PRK10001, PRK10001, D-alanyl-D-alanine carboxypeptidase | 1e-32 | |
PRK11397 | 388 | PRK11397, dacD, D-alanyl-D-alanine carboxypeptidase; Pr | 4e-30 | |
PRK11669 | 306 | PRK11669, pbpG, D-alanyl-D-alanine endopeptidase; Provi | 7e-07 | |
COG1686 | 389 | COG1686, DacC, D-alanyl-D-alanine carboxypeptidase [Cel | 3e-58 |
>gnl|CDD|144388 pfam00768, Peptidase_S11, D-alanyl-D-alanine carboxypeptidase | Back alignment and domain information |
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>gnl|CDD|182736 PRK10793, PRK10793, D-alanyl-D-alanine carboxypeptidase fraction A; Provisional | Back alignment and domain information |
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>gnl|CDD|182189 PRK10001, PRK10001, D-alanyl-D-alanine carboxypeptidase fraction C; Provisional | Back alignment and domain information |
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>gnl|CDD|183117 PRK11397, dacD, D-alanyl-D-alanine carboxypeptidase; Provisional | Back alignment and domain information |
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>gnl|CDD|183269 PRK11669, pbpG, D-alanyl-D-alanine endopeptidase; Provisional | Back alignment and domain information |
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>gnl|CDD|31872 COG1686, DacC, D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane] | Back alignment and domain information |
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Conserved Domains in CDD Database Detected by HHsearch
Original result of HHsearch against CDD database
Identity | Alignment graph | Length | Definition | Probability |
Target | 336 | D-alanyl-D-alanine carboxypeptidase 1 penicillin-bindin | ||
PRK11397 | 390 | dacD D-alanyl-D-alanine carboxypeptidase; Provisional | 100.0 | |
PRK10793 | 403 | D-alanyl-D-alanine carboxypeptidase fraction A; Provisi | 100.0 | |
PRK10001 | 400 | D-alanyl-D-alanine carboxypeptidase fraction C; Provisi | 100.0 | |
COG1686 | 389 | DacC D-alanyl-D-alanine carboxypeptidase [Cell envelope | 100.0 | |
PRK11669 | 308 | pbpG D-alanyl-D-alanine endopeptidase; Provisional | 100.0 | |
PRK10795 | 619 | penicillin-binding protein 2; Provisional | 98.59 | |
COG0768 | 599 | FtsI Cell division protein FtsI/penicillin-binding prot | 96.41 | |
COG2602 | 254 | Beta-lactamase class D [Defense mechanisms] | 94.87 | |
PRK11240 | 770 | penicillin-binding protein 1C; Provisional | 93.83 | |
pfam00768 | 241 | Peptidase_S11 D-alanyl-D-alanine carboxypeptidase. | 100.0 | |
COG2367 | 329 | PenP Beta-lactamase class A [Defense mechanisms] | 99.38 | |
pfam00905 | 296 | Transpeptidase Penicillin binding protein transpeptidas | 98.65 | |
PRK11113 | 477 | D-alanyl-D-alanine carboxypeptidase/endopeptidase; Prov | 99.16 | |
COG2027 | 470 | DacB D-alanyl-D-alanine carboxypeptidase (penicillin-bi | 97.44 | |
PRK11289 | 387 | ampC beta-lactamase; Provisional | 98.46 | |
pfam00144 | 327 | Beta-lactamase Beta-lactamase. This family appears to b | 98.19 | |
PRK09506 | 839 | mrcB penicillin-binding protein 1b; Reviewed | 97.0 | |
PRK11636 | 850 | mrcA peptidoglycan synthetase; Provisional | 96.83 | |
TIGR02074 | 700 | PBP_1a_fam penicillin-binding protein, 1A family; Inter | 96.3 | |
COG0744 | 661 | MrcB Membrane carboxypeptidase (penicillin-binding prot | 91.05 | |
TIGR03423 | 592 | pbp2_mrdA penicillin-binding protein 2. Members of this | 98.23 | |
COG2027 | 470 | DacB D-alanyl-D-alanine carboxypeptidase (penicillin-bi | 96.31 | |
PRK10662 | 377 | beta-lactamase/D-alanine carboxypeptidase; Provisional | 98.12 | |
pfam02113 | 383 | Peptidase_S13 D-Ala-D-Ala carboxypeptidase 3 (S13) fami | 97.93 | |
TIGR00666 | 427 | PBP4 D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-ala | 96.23 | |
PRK13128 | 518 | D-aminopeptidase; Reviewed | 96.95 | |
PRK03642 | 432 | hypothetical protein; Provisional | 96.93 | |
COG1680 | 390 | AmpC Beta-lactamase class C and other penicillin bindin | 95.46 | |
TIGR00666 | 427 | PBP4 D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-ala | 94.65 |
>PRK11397 dacD D-alanyl-D-alanine carboxypeptidase; Provisional | Back alignment and domain information |
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>PRK10793 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional | Back alignment and domain information |
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>PRK10001 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional | Back alignment and domain information |
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>COG1686 DacC D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane] | Back alignment and domain information |
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>PRK11669 pbpG D-alanyl-D-alanine endopeptidase; Provisional | Back alignment and domain information |
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>PRK10795 penicillin-binding protein 2; Provisional | Back alignment and domain information |
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>COG0768 FtsI Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane] | Back alignment and domain information |
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>COG2602 Beta-lactamase class D [Defense mechanisms] | Back alignment and domain information |
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>PRK11240 penicillin-binding protein 1C; Provisional | Back alignment and domain information |
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>pfam00768 Peptidase_S11 D-alanyl-D-alanine carboxypeptidase | Back alignment and domain information |
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>COG2367 PenP Beta-lactamase class A [Defense mechanisms] | Back alignment and domain information |
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>pfam00905 Transpeptidase Penicillin binding protein transpeptidase domain | Back alignment and domain information |
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>PRK11113 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional | Back alignment and domain information |
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>COG2027 DacB D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane] | Back alignment and domain information |
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>PRK11289 ampC beta-lactamase; Provisional | Back alignment and domain information |
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>pfam00144 Beta-lactamase Beta-lactamase | Back alignment and domain information |
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>PRK09506 mrcB penicillin-binding protein 1b; Reviewed | Back alignment and domain information |
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>PRK11636 mrcA peptidoglycan synthetase; Provisional | Back alignment and domain information |
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>TIGR02074 PBP_1a_fam penicillin-binding protein, 1A family; InterPro: IPR011816 Bacterial that synthesize a cell wall of peptidoglycan (murein) generally have several transglycosylases and transpeptidases for the task | Back alignment and domain information |
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>COG0744 MrcB Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane] | Back alignment and domain information |
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>TIGR03423 pbp2_mrdA penicillin-binding protein 2 | Back alignment and domain information |
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>COG2027 DacB D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane] | Back alignment and domain information |
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>PRK10662 beta-lactamase/D-alanine carboxypeptidase; Provisional | Back alignment and domain information |
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>pfam02113 Peptidase_S13 D-Ala-D-Ala carboxypeptidase 3 (S13) family | Back alignment and domain information |
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>TIGR00666 PBP4 D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-alanine-endopeptidase; InterPro: IPR000667 Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes | Back alignment and domain information |
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>PRK13128 D-aminopeptidase; Reviewed | Back alignment and domain information |
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>PRK03642 hypothetical protein; Provisional | Back alignment and domain information |
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>COG1680 AmpC Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms] | Back alignment and domain information |
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>TIGR00666 PBP4 D-alanyl-D-alanine carboxypeptidase/D-alanyl-D-alanine-endopeptidase; InterPro: IPR000667 Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes | Back alignment and domain information |
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Homologous Structures in PDB Database
Detected by PSI-BLAST, RPS-BLAST and HHsearch
Homologous Structures Detected by PSI-BLAST against Nonredundant Database
Identity | Alignment graph | Length | Definition | E-value |
Target | 336 | D-alanyl-D-alanine carboxypeptidase 1 penicillin-bindin | ||
3it9_A | 352 | Crystal Structure Of Penicillin-Binding Protein 6 ( | 3e-49 | |
1nzo_A | 363 | The Crystal Structure Of Wild Type Penicillin-Bindi | 2e-47 | |
1hd8_A | 363 | Crystal Structure Of A Deacylation-Defective Mutant | 5e-47 | |
3a3j_A | 344 | Crystal Structures Of Penicillin Binding Protein 5 | 2e-45 | |
1xp4_A | 379 | Crystal Structure Of A Peptidoglycan Synthesis Regu | 2e-31 | |
3mfd_A | 334 | The Structure Of The Beta-Lactamase Superfamily Dom | 1e-29 | |
2bcf_A | 276 | Crystal Structure Of A Evolved Putative Penicillin- | 6e-26 | |
1skf_A | 262 | Crystal Structure Of The Streptomyces K15 Dd-Transp | 6e-25 | |
1es2_A | 262 | S96a Mutant Of Streptomyces K15 Dd-Transpeptidase L | 6e-25 | |
1es4_A | 262 | C98n Mutant Of Streptomyces K15 Dd-Transpeptidase L | 1e-24 | |
1es5_A | 262 | S216a Mutant Of Streptomyces K15 Dd-Transpeptidase | 1e-24 | |
1es3_A | 262 | C98a Mutant Of Streptomyces K15 Dd-Transpeptidase L | 1e-24 | |
1esi_A | 262 | R248l Mutant Of Streptomyces K15 Dd-Transpeptidase | 6e-24 | |
1j9m_A | 262 | K38h Mutant Of Streptomyces K15 Dd-Transpeptidase L | 3e-23 | |
1tvf_A | 369 | Crystal Structure Of Penicillin-Binding Protein 4 ( | 2e-20 | |
3hum_A | 453 | Crystal Structure Of Penicillin Binding Protein 4 F | 2e-20 |
>gi|261825019|pdb|3IT9|A Chain A, Crystal Structure Of Penicillin-Binding Protein 6 (Pbp6) From E. Coli In Apo State Length = 352 | Back alignment and structure |
Score = 200 bits (508), Expect = 3e-49, Method: Composition-based stats. Identities = 73/270 (27%), Positives = 130/270 (48%), Gaps = 8/270 (2%) Query: 45 ASELHAKPKYSSIVIDVNKNQMTGFKQDEPRY-PASLTKMMTLYIIFEYLQSKKLHLNTQ 103 E + + I++D ++ + + PASLTK+MT Y++ + L++ K+ L Sbjct: 5 TVEAPSVDARAWILMDYASGKVLAEGNADEKLDPASLTKIMTSYVVGQALKADKIKLTDM 64 Query: 104 IPVSKTAATQNPS------KLYLKEKTYFTTEQGILALITRSANDVSTAFGEFISGSEKK 157 + V K A ++LK + +I +S ND A ++++GS++ Sbjct: 65 VTVGKDAWATGNPALRGSSVMFLKPGDQVSVADLNKGVIIQSGNDACIALADYVAGSQES 124 Query: 158 FAILMSNKAKKIGMQNTIYKNASGLHDKNQITTARDQAILGILLRKNFPQYYKYFSIRKF 217 F LM+ AKK+G+ NT ++ GL Q +TARD A+LG L + P+ Y ++F Sbjct: 125 FIGLMNGYAKKLGLTNTTFQTVHGLDAPGQFSTARDMALLGKALIHDVPEEYAIHKEKEF 184 Query: 218 RYRNRIITNHNKLLNKMH-NIDGIKTGYTRNSGFNIVTSLRYKDDPIVAVVMGMPTSQER 276 + N N+LL + N+DG+KTG T +G+N+V S D +++VV+G T + R Sbjct: 185 TFNKIRQPNRNRLLWSSNLNVDGMKTGTTAGAGYNLVASATQGDMRLISVVLGAKTDRIR 244 Query: 277 DQKALELITSFLEKKTLKHQQTHRKDNLSS 306 ++ +L+T ++ Sbjct: 245 FNESEKLLTWGFRFFETVTPIKPDATFVTQ 274 |
>gi|42543137|pdb|1NZO|A Chain A, The Crystal Structure Of Wild Type Penicillin-Binding Protein 5 From E. Coli Length = 363 | Back alignment and structure |
>gi|17942531|pdb|1HD8|A Chain A, Crystal Structure Of A Deacylation-Defective Mutant Of Penicillin-Binding Protein 5 At 2.3 A Resolution Length = 363 | Back alignment and structure |
>gi|281500691|pdb|3A3J|A Chain A, Crystal Structures Of Penicillin Binding Protein 5 From Haemophilus Influenzae Length = 344 | Back alignment and structure |
>gi|56967192|pdb|1XP4|A Chain A, Crystal Structure Of A Peptidoglycan Synthesis Regulatory Factor (Pbp3) From Streptococcus Pneumoniae Length = 379 | Back alignment and structure |
>gi|296278518|pdb|3MFD|A Chain A, The Structure Of The Beta-Lactamase Superfamily Domain Of D- Alanine Carboxypeptidase From Bacillus Subtilis Length = 334 | Back alignment and structure |
>gi|82408083|pdb|2BCF|A Chain A, Crystal Structure Of A Evolved Putative Penicillin-Binding Protein Homolog, Rv2911, From Mycobacterium Tuberculosis Length = 276 | Back alignment and structure |
>gi|157833819|pdb|1SKF|A Chain A, Crystal Structure Of The Streptomyces K15 Dd-Transpeptidase Length = 262 | Back alignment and structure |
>gi|7766851|pdb|1ES2|A Chain A, S96a Mutant Of Streptomyces K15 Dd-Transpeptidase Length = 262 | Back alignment and structure |
>gi|7766853|pdb|1ES4|A Chain A, C98n Mutant Of Streptomyces K15 Dd-Transpeptidase Length = 262 | Back alignment and structure |
>gi|7766854|pdb|1ES5|A Chain A, S216a Mutant Of Streptomyces K15 Dd-Transpeptidase Length = 262 | Back alignment and structure |
>gi|7766852|pdb|1ES3|A Chain A, C98a Mutant Of Streptomyces K15 Dd-Transpeptidase Length = 262 | Back alignment and structure |
>gi|7766855|pdb|1ESI|A Chain A, R248l Mutant Of Streptomyces K15 Dd-Transpeptidase Length = 262 | Back alignment and structure |
>gi|14719796|pdb|1J9M|A Chain A, K38h Mutant Of Streptomyces K15 Dd-Transpeptidase Length = 262 | Back alignment and structure |
>gi|50513810|pdb|1TVF|A Chain A, Crystal Structure Of Penicillin-Binding Protein 4 (Pbp4) From Staphylococcus Aureus Length = 369 | Back alignment and structure |
>gi|266618633|pdb|3HUM|A Chain A, Crystal Structure Of Penicillin Binding Protein 4 From Staphylococcus Aureus Col In Complex With Cefotaxime Length = 453 | Back alignment and structure |
Homologous Structures in PDB70 Database Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
Identity | Alignment graph | Length | Definition | E-value |
Target | 336 | D-alanyl-D-alanine carboxypeptidase 1 penicillin-bindin | ||
3a3j_A | 344 | PBP5; penicillin binding protein 5, DACA, hydrolase; 2. | 1e-42 | |
3mfd_A | 334 | D-alanyl-D-alanine carboxypeptidase DACB; penicillin-bi | 2e-42 | |
1es5_A | 262 | DD-transpeptidase; penicillin-binding, serine peptidase | 1e-40 | |
3ita_A | 352 | D-alanyl-D-alanine carboxypeptidase DACC; ppenicillin-b | 7e-40 | |
1z6f_A | 363 | Penicillin-binding protein 5; peptidoglycan synthesis, | 3e-37 | |
1n9b_A | 265 | Penicillinase, beta-lactamase SHV-2; beta-lactam hydrol | 1e-36 | |
1m40_A | 263 | TEM-1, beta-lactamase TEM; acylation mechanism, ultra- | 2e-36 | |
1hzo_A | 271 | Beta-lactamase; mixed alpha/beta, cephalosporinase, hyd | 1e-34 | |
1o7e_A | 276 | L2 beta lactamase; hydrolase, class A; 1.51A {Stenotrop | 5e-34 | |
3m6b_A | 265 | Beta-lactamase, penicillinase; alpha-beta structure, an | 6e-34 | |
3hun_A | 453 | Penicillin-binding protein 4; ampicillin, beta-lactamas | 3e-32 | |
2p74_A | 263 | Beta-lactamase CTX-M-9A; ultra-high resolution, acylati | 3e-32 | |
3cg5_A | 265 | Beta-lactamase, penicillinase; alpha-beta structure, co | 7e-32 | |
1g6a_A | 271 | Beta-lactamase PSE-4; class A beta-lactamase, carbenici | 1e-31 | |
3lez_A | 260 | Beta-lactamase; antibiotic resistance, halotolerant, DE | 6e-31 | |
3dw0_A | 294 | Class A carbapenemase KPC-2; beta-lactamase, antibiotic | 6e-30 | |
1tvf_A | 369 | PBP4, penicillin binding protein 4; structural genomics | 7e-30 | |
2wk0_A | 265 | Beta-lactamase; hydrolase, iodopenicillanate, antibioti | 4e-29 | |
1bue_A | 265 | Protein (imipenem-hydrolysing beta-lactamase); hydrolas | 4e-29 | |
2cc1_A | 262 | Beta-lactamase, penicillinase; hydrolase, antibiotic re | 8e-29 | |
1ghp_A | 258 | Beta-lactamase, penicillinase; hydrolase, antibiotic re | 1e-28 | |
1bsg_A | 266 | Beta lactamase, penicillinase; hydrolase, antibiotic re | 1e-28 | |
3c5a_A | 264 | Class A carbapenemase KPC-2; beta-lactamase, C-terminal | 5e-28 | |
1xp4_A | 379 | D-alanyl-D-alanine carboxypeptidase; five-stranded anti | 1e-26 | |
2bcf_A | 276 | Probable D-alanyl-D-alanine carboxypeptidase DACB2; pen | 3e-25 | |
2j9o_A | 298 | TLL2115 protein; penicillin-binding protein, hydrolase, | 1e-24 | |
3p09_A | 290 | Beta-lactamase; structural genomics, center for structu | 2e-24 | |
3cjm_A | 282 | Putative beta-lactamase; NP_815223.1, structural genomi | 2e-24 | |
1e25_A | 282 | Extended-spectrum beta-lactamase PER-1; hydrolase, anti | 3e-24 | |
2qpn_A | 287 | Beta-lactamase GES-1; APO-enzyme, plasmid, hydrolase; 1 | 3e-24 | |
1w7f_A | 307 | Beta-lactamase; hydrolase, isocitrate, bacillus licheni | 5e-24 | |
2wuq_A | 318 | BLAB, beta-lactamase regulatory protein BLAB; class A b | 2e-07 | |
1alq_A | 266 | CP254 beta-lactamase; hydrolase, circular permuted, ant | 9e-19 |
>3a3j_A PBP5; penicillin binding protein 5, DACA, hydrolase; 2.15A {Haemophilus influenzae} Length = 344 | Back alignment and structure |
---|
Score = 168 bits (427), Expect = 1e-42 Identities = 78/244 (31%), Positives = 137/244 (56%), Gaps = 9/244 (3%) Query: 47 ELHAKPKYSSIVIDVNKNQ-MTGFKQDEPRYPASLTKMMTLYIIFEYLQSKKLHLNTQIP 105 ++ A+ + +++D N +T D+ +YPASLTKMMT Y++ L+ K+H + Sbjct: 6 QITAQ---TYVLMDYNSGAILTALNPDQRQYPASLTKMMTSYVVGVALKQGKIHNTDMVT 62 Query: 106 VSKTAATQN---PSKLYLKEKTYFTTEQGILALITRSANDVSTAFGEFISGSEKKFAILM 162 + ++A +N SK++L T + +I S ND + A E ISG+ F M Sbjct: 63 IGESAWGRNFPDSSKMFLDLNTQVSVADLNRGVIVVSGNDATVALAEHISGNVPNFVETM 122 Query: 163 SNKAKKIGMQNTIYKNASGLHDKNQITTARDQAILGILLRKNFPQYYKYFSIRKFRYRNR 222 + ++ G++NT + GL D NQ ++ARD AI+G + ++ P+ YK +S + F + Sbjct: 123 NKYVQQFGLKNTNFTTPHGLDDPNQYSSARDMAIIGAHIIRDLPEEYKIYSEKDFTFNKI 182 Query: 223 IITNHNK-LLNKMHNIDGIKTGYTRNSGFNIVTSLRYKD-DPIVAVVMGMPTSQERDQKA 280 N N L +K N+DG+KTG+T +G+N+V S + +++VVMG+PT + R+ ++ Sbjct: 183 KQPNRNGLLWDKTINVDGMKTGHTSQAGYNLVASATTSNNMRLISVVMGVPTYKGREVES 242 Query: 281 LELI 284 +L+ Sbjct: 243 KKLL 246 |
>3mfd_A D-alanyl-D-alanine carboxypeptidase DACB; penicillin-binding protein 5*, beta-lactamase, structural GE PSI-2, protein structure initiative; HET: CIT; 1.75A {Bacillus subtilis} Length = 334 | Back alignment and structure |
---|
>1es5_A DD-transpeptidase; penicillin-binding, serine peptidase, beta-lactamase, hydrolase carboxypeptidase; 1.40A {Streptomyces SP} SCOP: e.3.1.1 PDB: 1skf_A 1es2_A 1j9m_A 1esi_A 1es3_A 1es4_A Length = 262 | Back alignment and structure |
---|
>3ita_A D-alanyl-D-alanine carboxypeptidase DACC; ppenicillin-binding protein, BP6, DD-carboxypeptidase, peptidoglycan, ampicillin, acyl-enzyme complex; HET: AIX AIC; 1.80A {Escherichia coli} PDB: 3it9_A* 3itb_A* Length = 352 | Back alignment and structure |
---|
>1z6f_A Penicillin-binding protein 5; peptidoglycan synthesis, DD- carboxypeptidase, hydrolase, boronic acid; HET: BO9; 1.60A {Escherichia coli} SCOP: b.105.1.1 e.3.1.1 PDB: 1nzu_A 1nzo_A* 3beb_A* 3bec_A* 1nj4_A 1hd8_A 1sdn_A Length = 363 | Back alignment and structure |
---|
>1n9b_A Penicillinase, beta-lactamase SHV-2; beta-lactam hydrolase, detergent binding, drug design, radiation damage; HET: MA4 EPE; 0.90A {Klebsiella pneumoniae} SCOP: e.3.1.1 PDB: 3d4f_A* 2zd8_A* 1q2p_A* 1shv_A* 1vm1_A* 2g2u_A 2h5s_A* 1ong_A* 3c4o_A 3c4p_A 2a3u_A* 1tdg_A* 1tdl_A* 2a49_A* 2g2w_A 1rcj_A* 2h0t_A* 2h0y_A* 2h10_A* Length = 265 | Back alignment and structure |
---|
>1m40_A TEM-1, beta-lactamase TEM; acylation mechanism, ultra- high resolution, hydrolase; HET: CB4; 0.85A {Escherichia coli} SCOP: e.3.1.1 PDB: 1jwp_A* 1nxy_A* 1ny0_A* 1nym_A* 1nyy_A* 1pzo_A* 1erm_A* 1ero_A* 1erq_A* 1s0w_A 1xpb_A 1li0_A 1htz_A 1jtd_A 1esu_A 1jwz_A* 1li9_A 1jwv_A* 1jtg_A 1axb_A* ... Length = 263 | Back alignment and structure |
---|
>1hzo_A Beta-lactamase; mixed alpha/beta, cephalosporinase, hydrolase; HET: MES; 1.75A {Proteus vulgaris} SCOP: e.3.1.1 Length = 271 | Back alignment and structure |
---|
>1o7e_A L2 beta lactamase; hydrolase, class A; 1.51A {Stenotrophomonas maltophilia} SCOP: e.3.1.1 PDB: 1n4o_A Length = 276 | Back alignment and structure |
---|
>3m6b_A Beta-lactamase, penicillinase; alpha-beta structure, antibiotic resistance, cell membrane, hydrolase, lipoprotein, membrane; HET: 1RG; 1.30A {Mycobacterium tuberculosis} PDB: 3dwz_A* 3iqa_A* 3cg5_A* 3m6h_A* 2gdn_A Length = 265 | Back alignment and structure |
---|
>3hun_A Penicillin-binding protein 4; ampicillin, beta-lactamase, serine type D-Ala, D-Ala-carboxypeptidase, hydrolase; HET: ZZ7; 2.00A {Staphylococcus aureus} PDB: 3hum_A* Length = 453 | Back alignment and structure |
---|
>2p74_A Beta-lactamase CTX-M-9A; ultra-high resolution, acylation, ESBL, hydrolase; HET: PO4; 0.88A {Escherichia coli} PDB: 3g2y_A* 1ylj_A* 1yly_A* 1ym1_A* 1yms_A* 1ymx_A* 3g2z_A* 3g30_A* 3g31_A* 3g32_A* 3g34_A* 3g35_A* 1ylt_A* 1ylz_A* 1ylw_A 1ylp_A* 1iys_A 2zq8_A* 1we4_A 1bza_A ... Length = 263 | Back alignment and structure |
---|
>3cg5_A Beta-lactamase, penicillinase; alpha-beta structure, covalent adduct, antibiotic resistance, hydrolase, lipoprotein, membrane; HET: ISS; 1.70A {Mycobacterium tuberculosis} PDB: 3dwz_A* 2gdn_A Length = 265 | Back alignment and structure |
---|
>1g6a_A Beta-lactamase PSE-4; class A beta-lactamase, carbenicillinase, R234K mutant, hydrolase; 1.75A {Pseudomonas aeruginosa} SCOP: e.3.1.1 PDB: 1g68_A Length = 271 | Back alignment and structure |
---|
>3lez_A Beta-lactamase; antibiotic resistance, halotolerant, DEEP- SEA bacterium, hydrolase; HET: EPE; 1.25A {Oceanobacillus iheyensis} Length = 260 | Back alignment and structure |
---|
>3dw0_A Class A carbapenemase KPC-2; beta-lactamase, antibiotic resistance, hydrolase; 1.60A {Escherichia coli} Length = 294 | Back alignment and structure |
---|
>1tvf_A PBP4, penicillin binding protein 4; structural genomics, nysgxrc target, SAV0642, PSI, protein structure initiative; 2.00A {Staphylococcus aureus} SCOP: b.105.1.2 e.3.1.1 Length = 369 | Back alignment and structure |
---|
>2wk0_A Beta-lactamase; hydrolase, iodopenicillanate, antibiotic resistance; HET: BIY CIT; 1.65A {Bacillus licheniformis} PDB: 3b3x_A* 1i2s_A* 1i2w_A* 2blm_A 4blm_A 1mbl_A Length = 265 | Back alignment and structure |
---|
>1bue_A Protein (imipenem-hydrolysing beta-lactamase); hydrolase, antibiotic resistance, class A carbapenemase; 1.64A {Enterobacter cloacae} SCOP: e.3.1.1 PDB: 1bul_A* 1dy6_A Length = 265 | Back alignment and structure |
---|
>2cc1_A Beta-lactamase, penicillinase; hydrolase, antibiotic resistance, broad-spectrum; 2.13A {Mycobacterium fortuitum} SCOP: e.3.1.1 Length = 262 | Back alignment and structure |
---|
>1ghp_A Beta-lactamase, penicillinase; hydrolase, antibiotic resistance, beta-lactam hydrolysis, benzylpenicillin, cephaloridine; HET: PNM; 1.76A {Staphylococcus aureus} SCOP: e.3.1.1 PDB: 1ghi_A* 1ghm_A* 1kgf_A 1kge_A 1ome_A 1kgg_A 1dja_A 3blm_A 1blh_A* 1blc_A 1djc_A 1djb_A 1blp_A 1pio_A Length = 258 | Back alignment and structure |
---|
>1bsg_A Beta lactamase, penicillinase; hydrolase, antibiotic resistance; 1.85A {Streptomyces albus G} SCOP: e.3.1.1 Length = 266 | Back alignment and structure |
---|
>3c5a_A Class A carbapenemase KPC-2; beta-lactamase, C-terminal deleted mutant, plasmid, hydrolase; HET: CIT; 1.23A {Escherichia coli} PDB: 2ods_A 2ov5_A* 3e2k_A 3e2l_A* Length = 264 | Back alignment and structure |
---|
>1xp4_A D-alanyl-D-alanine carboxypeptidase; five-stranded antiparallel beta-sheet, omega-like loop, hydrolase; 2.80A {Streptococcus pneumoniae R6} SCOP: b.105.1.1 e.3.1.1 Length = 379 | Back alignment and structure |
---|
>2bcf_A Probable D-alanyl-D-alanine carboxypeptidase DACB2; penicillin-binding protein, DD-2 carboxypeptidase, directed evolution; 2.30A {Mycobacterium tuberculosis} Length = 276 | Back alignment and structure |
---|
>2j9o_A TLL2115 protein; penicillin-binding protein, hydrolase, lactamase, thioesterase, DD-peptidase; 1.50A {Synechococcus elongatus} PDB: 2jbf_A* 2j7v_A 2j8y_A* Length = 298 | Back alignment and structure |
---|
>3p09_A Beta-lactamase; structural genomics, center for structural genomics of infec diseases, csgid, alpha-beta sandwich, cytosol; HET: MSE; 1.90A {Francisella tularensis subsp} Length = 290 | Back alignment and structure |
---|
>3cjm_A Putative beta-lactamase; NP_815223.1, structural genomics, joint center for structural genomics, JCSG, protein structure initiative; HET: MSE; 1.50A {Enterococcus faecalis V583} Length = 282 | Back alignment and structure |
---|
>1e25_A Extended-spectrum beta-lactamase PER-1; hydrolase, antibiotic resistance, class A cephalosporinase; 1.9A {Pseudomonas aeruginosa} SCOP: e.3.1.1 Length = 282 | Back alignment and structure |
---|
>2qpn_A Beta-lactamase GES-1; APO-enzyme, plasmid, hydrolase; 1.10A {Klebsiella pneumoniae} Length = 287 | Back alignment and structure |
---|
>1w7f_A Beta-lactamase; hydrolase, isocitrate, bacillus licheniformis hydrolase; HET: ICT; 1.80A {Bacillus licheniformis} Length = 307 | Back alignment and structure |
---|
>2wuq_A BLAB, beta-lactamase regulatory protein BLAB; class A beta-lactamase fold, transcription regulation, beta-lactamase induction, transcription; 1.80A {Streptomyces cacaoi} Length = 318 | Back alignment and structure |
---|
>1alq_A CP254 beta-lactamase; hydrolase, circular permuted, antibiotic resistance; 1.80A {Staphylococcus aureus} SCOP: e.3.1.1 Length = 266 | Back alignment and structure |
---|
Homologous Structures in PDB70 Database Detected by HHsearch
Original result of HHsearch against PDB70 database
Identity | Alignment graph | Length | Definition | Probability |
Target | 336 | D-alanyl-D-alanine carboxypeptidase 1 penicillin-bindin | ||
3hun_A | 453 | Penicillin-binding protein 4; ampicillin, beta-lactamas | 100.0 | |
3ita_A | 352 | D-alanyl-D-alanine carboxypeptidase DACC; ppenicillin-b | 100.0 | |
1z6f_A | 363 | Penicillin-binding protein 5; peptidoglycan synthesis, | 100.0 | |
3a3j_A | 344 | PBP5; penicillin binding protein 5, DACA, hydrolase; 2. | 100.0 | |
1xp4_A | 379 | D-alanyl-D-alanine carboxypeptidase; five-stranded anti | 100.0 | |
1tvf_A | 369 | PBP4, penicillin binding protein 4; structural genomics | 100.0 | |
3mfd_A | 334 | D-alanyl-D-alanine carboxypeptidase DACB; penicillin-bi | 100.0 | |
1es5_A | 262 | DD-transpeptidase; penicillin-binding, serine peptidase | 100.0 | |
2bcf_A | 276 | Probable D-alanyl-D-alanine carboxypeptidase DACB2; pen | 100.0 | |
1w7f_A | 307 | Beta-lactamase; hydrolase, isocitrate, bacillus licheni | 100.0 | |
2cc1_A | 262 | Beta-lactamase, penicillinase; hydrolase, antibiotic re | 100.0 | |
3dw0_A | 294 | Class A carbapenemase KPC-2; beta-lactamase, antibiotic | 100.0 | |
2j9o_A | 298 | TLL2115 protein; penicillin-binding protein, hydrolase, | 100.0 | |
1n9b_A | 265 | Penicillinase, beta-lactamase SHV-2; beta-lactam hydrol | 100.0 | |
2wk0_A | 265 | Beta-lactamase; hydrolase, iodopenicillanate, antibioti | 99.98 | |
1o7e_A | 276 | L2 beta lactamase; hydrolase, class A; 1.51A {Stenotrop | 99.98 | |
3c5a_A | 264 | Class A carbapenemase KPC-2; beta-lactamase, C-terminal | 99.97 | |
3p09_A | 290 | Beta-lactamase; structural genomics, center for structu | 99.97 | |
1hzo_A | 271 | Beta-lactamase; mixed alpha/beta, cephalosporinase, hyd | 99.97 | |
1g6a_A | 271 | Beta-lactamase PSE-4; class A beta-lactamase, carbenici | 99.96 | |
1bsg_A | 266 | Beta lactamase, penicillinase; hydrolase, antibiotic re | 99.96 | |
1e25_A | 282 | Extended-spectrum beta-lactamase PER-1; hydrolase, anti | 99.96 | |
3cjm_A | 282 | Putative beta-lactamase; NP_815223.1, structural genomi | 99.95 | |
1ghp_A | 258 | Beta-lactamase, penicillinase; hydrolase, antibiotic re | 99.95 | |
3hbr_A | 265 | OXA-48; class D beta-lactamase, antibiotic, dimer, hydr | 99.17 | |
1yqs_A | 349 | D-alanyl-D-alanine carboxypeptidase; cell well biosynth | 98.47 | |
2qpn_A | 287 | Beta-lactamase GES-1; APO-enzyme, plasmid, hydrolase; 1 | 100.0 | |
1m40_A | 263 | TEM-1, beta-lactamase TEM; acylation mechanism, ultra- | 100.0 | |
3m6b_A | 265 | Beta-lactamase, penicillinase; alpha-beta structure, an | 100.0 | |
2p74_A | 263 | Beta-lactamase CTX-M-9A; ultra-high resolution, acylati | 100.0 | |
1bue_A | 265 | Protein (imipenem-hydrolysing beta-lactamase); hydrolas | 99.97 | |
3lez_A | 260 | Beta-lactamase; antibiotic resistance, halotolerant, DE | 99.96 | |
1alq_A | 266 | CP254 beta-lactamase; hydrolase, circular permuted, ant | 99.92 | |
2wuq_A | 318 | BLAB, beta-lactamase regulatory protein BLAB; class A b | 99.85 | |
1nrf_A | 262 | Regulatory protein BLAR1; penicillin-receptor, beta-lac | 99.02 | |
2iwb_A | 246 | Methicillin resistance MECR1 protein; antibiotic resist | 98.89 | |
1k38_A | 254 | Penicillinase, beta-lactamase OXA-2; serine beta-lactam | 98.82 | |
1k55_A | 246 | Beta lactamase OXA-10; antibiotic resistance, carbamyla | 98.73 | |
1xkz_A | 255 | Regulatory protein BLAR1; beta-lactam receptor, signal | 98.73 | |
3g4p_A | 244 | Beta-lactamase OXA-24; plasmid, B-lactamases, enzyme me | 98.65 | |
3isg_A | 251 | Penicillinase, beta-lactamase OXA-1; hydrolase, lysine | 98.56 | |
3fwm_A | 751 | Penicillin-binding protein 1B; bacterial cell WALL synt | 97.97 | |
3a3d_A | 453 | PBP4, penicillin-binding protein 4; DACB, hydrolase; 1. | 99.46 | |
1w5d_A | 462 | Penicillin-binding protein; D-Ala-D-Ala-carboxypeptidas | 99.38 | |
2ex2_A | 458 | Penicillin-binding protein 4; cephem, penem, D- alanyl- | 99.24 | |
1w79_A | 489 | D-alanyl-D-alanine carboxypeptidase; penicillin-binding | 99.12 | |
3i7j_A | 280 | Beta-lactamase MB2281C; alpha-beta protein., structural | 98.71 | |
2wad_A | 680 | Penicillin-binding protein 2B; peptidoglycan synthesis, | 98.56 | |
2ffy_A | 358 | Beta-lactamase; AMPC, deacylation, transition state, bo | 98.52 | |
1zkj_A | 359 | CMY-10, extended-spectrum beta-lactamase; plasmid, clas | 98.41 | |
2qmi_A | 447 | PBP related beta-lactamase; PAB87, octamer, LU-HPDO3A, | 98.32 | |
2v2f_F | 390 | Penicillin binding protein 1A; transpeptidase activity, | 98.32 | |
2wzx_A | 371 | Beta-lactamase; inhibitor, hydrolase, antibiotic resist | 98.31 | |
2qz6_A | 358 | Beta-lactamase; psychrophIle, cold adaptation, antibiot | 98.3 | |
3ozh_A | 351 | Beta-lactamase/D-alanine carboxypeptidase; structural g | 98.28 | |
2drw_A | 363 | DAA, D-amino acid amidase; penicillin recognizing prote | 98.19 | |
3lo7_A | 483 | PBPA, penicillin-binding protein A; transpeptidase doma | 98.07 | |
1ei5_A | 520 | D-aminopeptidase, DAP; penicillin binding protein, alph | 98.07 | |
3oc2_A | 564 | Penicillin-binding protein 3; structu genomics, oxford | 97.91 | |
2dcf_A | 392 | 6-aminohexanoate-dimer hydrolase; HET: ACA MES; 1.40A { | 97.75 | |
2bg1_A | 494 | PBP1B, penicillin-binding protein 1B; peptidoglycan, pe | 97.15 | |
2olv_A | 669 | Penicillin-binding protein 2; transpeptidase fold, glyc | 95.94 | |
2jch_A | 720 | Penicillin-binding protein 1B; peptidoglycan synthesis | 95.94 | |
1ci9_A | 392 | ESTB, protein (carboxylesterase); hydrolase, caboxylest | 98.36 | |
3hlc_A | 432 | Transesterase, LOVD; alpha/beta hydrolase fold, transfe | 97.63 | |
1qme_A | 702 | Penicillin-binding protein 2X; peptidoglycan synthesis, | 98.06 | |
3equ_A | 542 | PBP-2, penicillin-binding protein 2; class B transpepti | 97.85 | |
1vqq_A | 646 | Saupbp2A, penicillin-binding protein MECA, low-affinity | 97.56 |
>3hun_A Penicillin-binding protein 4; ampicillin, beta-lactamase, serine type D-Ala, D-Ala-carboxypeptidase, antibiotics; HET: ZZ7; 2.00A {Staphylococcus aureus} PDB: 3hum_A* | Back alignment and structure |
---|
Probab=100.00 E-value=0 Score=523.84 Aligned_cols=246 Identities=24% Similarity=0.307 Sum_probs=231.0 Q ss_pred CCCEEEEECCCCEEEEECCCCCC-CCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHCC----CCCCCCCCCCCEEE Q ss_conf 63199999889628311369988-88138799999999997555898855411153676124----54432257885688 Q gi|254780698|r 53 KYSSIVIDVNKNQMTGFKQDEPR-YPASLTKMMTLYIIFEYLQSKKLHLNTQIPVSKTAATQ----NPSKLYLKEKTYFT 127 (336) Q Consensus 53 ~~sAiv~D~~tG~ILy~Kn~~~~-~PASlTKlMTa~v~le~i~~g~i~~~~~v~is~~a~~~----~~s~~~l~~g~~~t 127 (336) +.+|||||++||+|||+||++++ +|||+|||||+|+++|++++|+++|+++|++|++++.. ++|.+++++|+++| T Consensus 70 a~sail~da~tG~iLy~KN~d~~~~pASlTKlMTa~l~le~i~~g~l~ld~~vtis~~a~~~~~~~~~S~~~l~~G~~~t 149 (453) T 3hun_A 70 EPTSAVNVSQTGQLLYQYNIDTKWNPASMTKLMTMYLTLEAVNKGQLSLDDTVTMTNKEYIMSTLPELSNTKLYPGQVWT 149 (453) T ss_dssp CCSEEEEEETTSBEEEEESTTCCBCCGGGHHHHHHHHHHHHHHTTSSCTTCEEECCHHHHHHTTCTTCCCCCCCTTCEEE T ss_pred CCEEEEEECCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHCCCCCCCCEEECCCCEEE T ss_conf 76179999899949335784988584499999999999999863798821256689999985258887621452897988 Q ss_pred EEHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCCEECCCCCCC--------------CCCCCCHHH Q ss_conf 302457889987777765455420100578999888768872661222002454333--------------344530134 Q gi|254780698|r 128 TEQGILALITRSANDVSTAFGEFISGSEKKFAILMSNKAKKIGMQNTIYKNASGLHD--------------KNQITTARD 193 (336) Q Consensus 128 v~dLl~~lli~S~NdAa~alAe~i~Gs~~~Fv~~MN~~A~~lGl~~t~f~np~Gl~~--------------~~~~tta~D 193 (336) ++|||+++|+.|+||||++|||+++|++++|+++||++|++|||++|||.||+||++ ++|+|||+| T Consensus 150 v~dLL~~lli~SaNdAA~aLAe~i~Gs~~~Fv~~MN~kAkeLGm~~T~F~Np~GL~~~~~~~~~~~~~~~~~~~~tTA~D 229 (453) T 3hun_A 150 IADLLQITVSNSSNAAALILAKKVSKNTSDFVDLMNNKAKAIGMKNTHFVNPTGAENSRLRSFAPTKYKDQERTVTTARD 229 (453) T ss_dssp HHHHHHHHHHSCCHHHHHHHHHHHSSSHHHHHHHHHHHHHHHTCTTCBCSSSSCSCHHHHGGGSCGGGTTCCCCBBCHHH T ss_pred HHHHHHHHHHHCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHH T ss_conf 99999876774427999999998189899999999999998389887666788887644443455444333430510999 Q ss_pred HHHHHHHHCCCCEEEEEEEEEEEEEECCEEEEEECHHCC----CCCCCEEEEECCCCCCCCEEEEEEEECCEEEEEEEEC Q ss_conf 555554201362046776115654347869972101025----7687005652242333717999999789799999817 Q gi|254780698|r 194 QAILGILLRKNFPQYYKYFSIRKFRYRNRIITNHNKLLN----KMHNIDGIKTGYTRNSGFNIVTSLRYKDDPIVAVVMG 269 (336) Q Consensus 194 la~l~~~~~~~~p~~~~~~s~~~~~~~~~~~~n~N~lL~----~~~g~~G~KTG~T~~AG~clv~~a~~~g~~lI~Vvlg 269 (336) |++|++++++++|++++++++..++++..++.|+|.+|. .|+|+||+|||||++||+|||++++|||+|+|+|||| T Consensus 230 la~l~~~~~~~~p~~~~~~~~~~~~~~~~~~~n~N~~l~~~~~~~~gvdGlKTG~T~~AG~~lv~sa~r~g~~lI~Vvlg 309 (453) T 3hun_A 230 YAILDLHVIKETPKILDFTKQLAPTTHAVTYYTFNFSLEGAKMSLPGTDGLKTGSSDTANYNHTITTKRGKFRINQVIMG 309 (453) T ss_dssp HHHHHHHHHHHCTTHHHHHTCSSCEETTEECCCSCTTSTTSTTCCTTEEEEEEEEETTTEEEEEEEEEETTEEEEEEEEE T ss_pred HHHHHHHHHHHCCCHHHHCEEEEEECCCEEEECCCCCCCCCCCCCCCCCCEEECCCCCCCCEEEEEEEECCEEEEEEEEC T ss_conf 99999998763730121014750002765640112355566567777422021120357553999999999899999969 Q ss_pred CCC------HHHHHHHHHHHHHHHHCCCCCEEEEE Q ss_conf 998------78999999999999840154034320 Q gi|254780698|r 270 MPT------SQERDQKALELITSFLEKKTLKHQQT 298 (336) Q Consensus 270 ~~s------~~~R~~~~~~Ll~~~f~~~~~~~~~~ 298 (336) +++ +..||.|+++||||+|++|..+.... T Consensus 310 a~~~~~~~~~~~R~~d~~~Lldy~f~~f~~~~l~~ 344 (453) T 3hun_A 310 AGDYKNLGGEKQRNMMGNALMERSFDQYKYVKILS 344 (453) T ss_dssp ESBTTTTBCHHHHHHHHHHHHHHHHHHEEEEEEEC T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHCEEEEEEC T ss_conf 89866544488899999999999885126999854 |
>3ita_A D-alanyl-D-alanine carboxypeptidase DACC; ppenicillin-binding protein, BP6, DD-carboxypeptidase, peptidoglycan, ampicillin, acyl-enzyme complex; HET: AIX AIC; 1.80A {Escherichia coli} PDB: 3it9_A* 3itb_A* | Back alignment and structure |
---|
>1z6f_A Penicillin-binding protein 5; peptidoglycan synthesis, DD- carboxypeptidase, hydrolase, boronic acid; HET: BO9; 1.60A {Escherichia coli} SCOP: b.105.1.1 e.3.1.1 PDB: 1nzu_A 1nzo_A* 3beb_A* 3bec_A* 1nj4_A 1hd8_A 1sdn_A | Back alignment and structure |
---|
>3a3j_A PBP5; penicillin binding protein 5, DACA, hydrolase; 2.15A {Haemophilus influenzae} | Back alignment and structure |
---|
>1xp4_A D-alanyl-D-alanine carboxypeptidase; five-stranded antiparallel beta-sheet, omega-like loop, hydrolase; 2.80A {Streptococcus pneumoniae R6} SCOP: b.105.1.1 e.3.1.1 | Back alignment and structure |
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>1tvf_A PBP4, penicillin binding protein 4; structural genomics, nysgxrc target, SAV0642, PSI, protein structure initiative; 2.00A {Staphylococcus aureus} SCOP: b.105.1.2 e.3.1.1 | Back alignment and structure |
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>3mfd_A D-alanyl-D-alanine carboxypeptidase DACB; penicillin-binding protein 5*, beta-lactamase, structural GE PSI-2, protein structure initiative; HET: CIT; 1.75A {Bacillus subtilis} | Back alignment and structure |
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>1es5_A DD-transpeptidase; penicillin-binding, serine peptidase, beta-lactamase, hydrolase carboxypeptidase; 1.40A {Streptomyces SP} SCOP: e.3.1.1 PDB: 1skf_A 1es2_A 1j9m_A 1esi_A 1es3_A 1es4_A | Back alignment and structure |
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>2bcf_A Probable D-alanyl-D-alanine carboxypeptidase DACB2; penicillin-binding protein, DD-2 carboxypeptidase, directed evolution; 2.30A {Mycobacterium tuberculosis} | Back alignment and structure |
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>1w7f_A Beta-lactamase; hydrolase, isocitrate, bacillus licheniformis hydrolase; HET: ICT; 1.80A {Bacillus licheniformis} | Back alignment and structure |
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>2cc1_A Beta-lactamase, penicillinase; hydrolase, antibiotic resistance, broad-spectrum; 2.13A {Mycobacterium fortuitum} SCOP: e.3.1.1 | Back alignment and structure |
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>3dw0_A Class A carbapenemase KPC-2; beta-lactamase, antibiotic resistance, hydrolase; 1.60A {Escherichia coli} | Back alignment and structure |
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>2j9o_A TLL2115 protein; penicillin-binding protein, hydrolase, lactamase, thioesterase, DD-peptidase; 1.50A {Synechococcus elongatus} PDB: 2jbf_A* 2j7v_A 2j8y_A* | Back alignment and structure |
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>1n9b_A Penicillinase, beta-lactamase SHV-2; beta-lactam hydrolase, detergent binding, drug design, radiation damage; HET: MA4 EPE; 0.90A {Klebsiella pneumoniae} SCOP: e.3.1.1 PDB: 3d4f_A* 2zd8_A* 1q2p_A* 1shv_A* 1vm1_A* 2g2u_A 2h5s_A* 1ong_A* 3c4o_A 3c4p_A 2a3u_A* 1tdg_A* 1tdl_A* 2a49_A* 2g2w_A 1rcj_A* 2h0t_A* 2h0y_A* 2h10_A* | Back alignment and structure |
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>2wk0_A Beta-lactamase; hydrolase, iodopenicillanate, antibiotic resistance; HET: BIY CIT; 1.65A {Bacillus licheniformis} PDB: 3b3x_A* 1i2s_A* 1i2w_A* 2blm_A 4blm_A 1mbl_A | Back alignment and structure |
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>1o7e_A L2 beta lactamase; hydrolase, class A; 1.51A {Stenotrophomonas maltophilia} SCOP: e.3.1.1 PDB: 1n4o_A | Back alignment and structure |
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>3c5a_A Class A carbapenemase KPC-2; beta-lactamase, C-terminal deleted mutant, plasmid, hydrolase; HET: CIT; 1.23A {Escherichia coli} PDB: 2ods_A 2ov5_A* 3e2k_A 3e2l_A* | Back alignment and structure |
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>3p09_A Beta-lactamase; structural genomics, center for structural genomics of infec diseases, csgid, alpha-beta sandwich, cytosol; HET: MSE; 1.90A {Francisella tularensis subsp} | Back alignment and structure |
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>1hzo_A Beta-lactamase; mixed alpha/beta, cephalosporinase, hydrolase; HET: MES; 1.75A {Proteus vulgaris} SCOP: e.3.1.1 | Back alignment and structure |
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>1g6a_A Beta-lactamase PSE-4; class A beta-lactamase, carbenicillinase, R234K mutant, hydrolase; 1.75A {Pseudomonas aeruginosa} SCOP: e.3.1.1 PDB: 1g68_A | Back alignment and structure |
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>1bsg_A Beta lactamase, penicillinase; hydrolase, antibiotic resistance; 1.85A {Streptomyces albus G} SCOP: e.3.1.1 | Back alignment and structure |
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>1e25_A Extended-spectrum beta-lactamase PER-1; hydrolase, antibiotic resistance, class A cephalosporinase; 1.9A {Pseudomonas aeruginosa} SCOP: e.3.1.1 | Back alignment and structure |
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>3cjm_A Putative beta-lactamase; NP_815223.1, structural genomics, joint center for structural genomics, JCSG, protein structure initiative; HET: MSE; 1.50A {Enterococcus faecalis V583} | Back alignment and structure |
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>1ghp_A Beta-lactamase, penicillinase; hydrolase, antibiotic resistance, beta-lactam hydrolysis, benzylpenicillin, cephaloridine; HET: PNM; 1.76A {Staphylococcus aureus} SCOP: e.3.1.1 PDB: 1ghi_A* 1ghm_A* 1kgf_A 1kge_A 1ome_A 1kgg_A 1dja_A 3blm_A 1blh_A* 1blc_A 1djc_A 1djb_A 1blp_A 1pio_A | Back alignment and structure |
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>3hbr_A OXA-48; class D beta-lactamase, antibiotic, dimer, hydrolase; HET: KCX; 1.90A {Klebsiella pneumoniae} | Back alignment and structure |
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>1yqs_A D-alanyl-D-alanine carboxypeptidase; cell well biosynthesis, beta-lactam, beta-sultam, sulfonylation, hydrolase; HET: BSA; 1.05A {Streptomyces SP} SCOP: e.3.1.1 PDB: 1cef_A* 1ceg_A* 1ikg_A* 1iki_A* 1hvb_A* 1pw1_A* 1pw8_A* 1mpl_A* 1pwd_A* 1pwc_A* 1scw_A* 1pwg_A* 3pte_A 1sde_A* | Back alignment and structure |
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>2qpn_A Beta-lactamase GES-1; APO-enzyme, plasmid, hydrolase; 1.10A {Klebsiella pneumoniae} | Back alignment and structure |
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>1m40_A TEM-1, beta-lactamase TEM; acylation mechanism, ultra- high resolution, hydrolase; HET: CB4; 0.85A {Escherichia coli} SCOP: e.3.1.1 PDB: 1jwp_A* 1nxy_A* 1ny0_A* 1nym_A* 1nyy_A* 1pzo_A* 1erm_A* 1ero_A* 1erq_A* 1s0w_A 1xpb_A 1li0_A 1htz_A 1jtd_A 1esu_A 1jwz_A* 1li9_A 1jwv_A* 1jtg_A 1axb_A* ... | Back alignment and structure |
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>3m6b_A Beta-lactamase, penicillinase; alpha-beta structure, antibiotic resistance, cell membrane, hydrolase, lipoprotein, membrane; HET: 1RG; 1.30A {Mycobacterium tuberculosis} PDB: 3dwz_A* 3iqa_A* 3cg5_A* 3m6h_A* 2gdn_A | Back alignment and structure |
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>2p74_A Beta-lactamase CTX-M-9A; ultra-high resolution, acylation, ESBL, hydrolase; HET: PO4; 0.88A {Escherichia coli} PDB: 3g2y_A* 1ylj_A* 1yly_A* 1ym1_A* 1yms_A* 1ymx_A* 3g2z_A* 3g30_A* 3g31_A* 3g32_A* 3g34_A* 3g35_A* 1ylt_A* 1ylz_A* 3hre_A 3hlw_A 3huo_A* 3hvf_A* 1ylw_A 1ylp_A* ... | Back alignment and structure |
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>1bue_A Protein (imipenem-hydrolysing beta-lactamase); hydrolase, antibiotic resistance, class A carbapenemase; 1.64A {Enterobacter cloacae} SCOP: e.3.1.1 PDB: 1bul_A* 1dy6_A | Back alignment and structure |
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>3lez_A Beta-lactamase; antibiotic resistance, halotolerant, DEEP- SEA bacterium, hydrolase; HET: EPE; 1.25A {Oceanobacillus iheyensis} | Back alignment and structure |
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>1alq_A CP254 beta-lactamase; hydrolase, circular permuted, antibiotic resistance; 1.80A {Staphylococcus aureus} SCOP: e.3.1.1 | Back alignment and structure |
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>2wuq_A BLAB, beta-lactamase regulatory protein BLAB; class A beta-lactamase fold, transcription regulation, beta-lactamase induction, transcription; 1.80A {Streptomyces cacaoi} | Back alignment and structure |
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>1nrf_A Regulatory protein BLAR1; penicillin-receptor, beta-lactamase induction, penicillin-binding protein, membrane protein; 2.50A {Bacillus licheniformis} SCOP: e.3.1.1 | Back alignment and structure |
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>2iwb_A Methicillin resistance MECR1 protein; antibiotic resistance, bacterial antibiotic resistance, methicillin resistance, beta-lactamic antibiotics, MRSA; 1.8A {Staphylococcus aureus} PDB: 2iwc_A* 2iwd_A* | Back alignment and structure |
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>1k38_A Penicillinase, beta-lactamase OXA-2; serine beta-lactamase, hydrolase, antibiotic resistance, carbamylated lysine; HET: KCX; 1.50A {Salmonella typhimurium} SCOP: e.3.1.1 PDB: 3if6_A* | Back alignment and structure |
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>1k55_A Beta lactamase OXA-10; antibiotic resistance, carbamylation, hydrolase; HET: KCX SO4; 1.39A {Pseudomonas aeruginosa} SCOP: e.3.1.1 PDB: 1e4d_A* 1ewz_A 1k54_A* 1e3u_A* 1k56_A* 1k57_A* 3lce_A* 1k4f_A* 1k4e_A* 1k6r_A* 1k6s_A* 2wgv_A* 2wgw_A* 1fof_A 1e3u_D 2hpb_A 2hp9_A 2hp6_A 2wgi_A* 2rl3_A* ... | Back alignment and structure |
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>1xkz_A Regulatory protein BLAR1; beta-lactam receptor, signal transduction, signaling protein; HET: CAZ EPE; 1.75A {Staphylococcus aureus} SCOP: e.3.1.1 PDB: 1xa1_A* 1xa7_A* | Back alignment and structure |
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>3g4p_A Beta-lactamase OXA-24; plasmid, B-lactamases, enzyme mechanism, carbapenem, resistance, hydrolase; HET: KCX; 1.97A {Acinetobacter baumannii} PDB: 2jc7_A* 3fyz_A* 3fzc_A* 3fv7_A* | Back alignment and structure |
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>3isg_A Penicillinase, beta-lactamase OXA-1; hydrolase, lysine carboxylation, antibiotic resistance, plasmid, transposable element; HET: KCX DRW; 1.40A {Escherichia coli} PDB: 1m6k_A* | Back alignment and structure |
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>3fwm_A Penicillin-binding protein 1B; bacterial cell WALL synthesis, antibiotics design, transferase, hydrolase; HET: M0E; 2.16A {Escherichia coli} PDB: 3fwl_A* | Back alignment and structure |
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>3a3d_A PBP4, penicillin-binding protein 4; DACB, hydrolase; 1.60A {Haemophilus influenzae} PDB: 3a3e_A* 3a3f_A* 3a3i_A* | Back alignment and structure |
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>1w5d_A Penicillin-binding protein; D-Ala-D-Ala-carboxypeptidase, peptidoglycan, beta-lactam, hydrolase, peptidoglycan synthesis; 2.1A {Bacillus subtilis} SCOP: e.3.1.3 PDB: 2j9p_A* | Back alignment and structure |
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>2ex2_A Penicillin-binding protein 4; cephem, penem, D- alanyl-D-alanine-carboxypeptidase, D-alanyl-D-alanine- endopeptidase, hydrolase; 1.55A {Escherichia coli} SCOP: e.3.1.3 PDB: 2ex6_A* 2ex8_A* 2ex9_A* 2exa_A* 2exb_A* | Back alignment and structure |
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>1w79_A D-alanyl-D-alanine carboxypeptidase; penicillin-binding, peptidoglycan, transpeptidase, antibiotic resistance, hydrolase; 1.8A {Actinomadura SP} SCOP: e.3.1.3 PDB: 1w8q_A 1w8y_A* 2vgj_A* 2vgk_A* 2wke_A* | Back alignment and structure |
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>3i7j_A Beta-lactamase MB2281C; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; 2.20A {Mycobacterium bovis} | Back alignment and structure |
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>2wad_A Penicillin-binding protein 2B; peptidoglycan synthesis, transmembrane, antibiotic resistance, cell shape, peptidoglycan, cell membrane; 2.18A {Streptococcus pneumoniae} PDB: 2wae_A 2waf_A | Back alignment and structure |
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>2ffy_A Beta-lactamase; AMPC, deacylation, transition state, boronic acid, hydrolase; HET: SM3; 1.07A {Escherichia coli} SCOP: e.3.1.1 PDB: 1pi5_A* 1pi4_A* 2hds_A* 1c3b_A* 1fco_A* 1ga9_A* 1iem_A* 1kds_A* 1kdw_A* 1ke0_A* 1ke3_A* 1iel_A 1kvm_A* 1l2s_A* 1ll5_A* 1ll9_A* 1llb_A* 1mxo_A* 1my8_A* 1xgi_A* ... | Back alignment and structure |
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>1zkj_A CMY-10, extended-spectrum beta-lactamase; plasmid, class C, hydrolase; 1.55A {Enterobacter aerogenes} | Back alignment and structure |
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>2qmi_A PBP related beta-lactamase; PAB87, octamer, LU-HPDO3A, archaea, hydrolase; HET: DO3; 2.20A {Pyrococcus abyssi} | Back alignment and structure |
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>2v2f_F Penicillin binding protein 1A; transpeptidase activity, peptidoglycan synthesis, transferase, hydrolase; HET: MES; 1.9A {Streptococcus pneumoniae} PDB: 2zc6_B* 2zc5_B* 2c6w_B 2c5w_B* | Back alignment and structure |
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>2wzx_A Beta-lactamase; inhibitor, hydrolase, antibiotic resistance; HET: ZX0; 1.40A {Pseudomonas aeruginosa} PDB: 2wzz_A* | Back alignment and structure |
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>2qz6_A Beta-lactamase; psychrophIle, cold adaptation, antibiotic resistance, hydrolase, periplasm; 2.26A {Pseudomonas fluorescens} | Back alignment and structure |
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>3ozh_A Beta-lactamase/D-alanine carboxypeptidase; structural genomics, center for structural genomics of infec diseases, csgid, alpha-beta sandwich; 1.91A {Yersinia pestis} | Back alignment and structure |
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>2drw_A DAA, D-amino acid amidase; penicillin recognizing protein, D-stereospecific, hydrophobic, hydrolase; 2.10A {Ochrobactrum anthropi} SCOP: e.3.1.1 PDB: 2dns_A 2efu_A* 2efx_A* | Back alignment and structure |
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>3lo7_A PBPA, penicillin-binding protein A; transpeptidase domain, cell membrane, cell shape, cell WALL biogenesis/degradation, membrane; 2.05A {Mycobacterium tuberculosis} | Back alignment and structure |
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>1ei5_A D-aminopeptidase, DAP; penicillin binding protein, alpha/beta domain, beta barrel domain, hydrolase; 1.90A {Ochrobactrum anthropi} SCOP: b.61.3.1 b.61.3.1 e.3.1.1 | Back alignment and structure |
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