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(-) Description

Title :  IDENTIFICATION OF DYNAMIC STRUCTURAL MOTIFS INVOLVED IN PEPTIDOGLYCAN GLYCOSYLTRANSFER
 
Authors :  A. L. Lovering, L. De Castro, N. C. J. Strynadka
Date :  22 Jul 08  (Deposition) - 30 Sep 08  (Release) - 18 Aug 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.10
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Lysozyme-Fold Transpeptidase Fold Pi-Helix, Cell Shape, Cell Wall Biogenesis/Degradation, Membrane, Peptidoglycan Synthesis, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. L. Lovering, L. De Castro, N. C. Strynadka
Identification Of Dynamic Structural Motifs Involved In Peptidoglycan Glycosyltransfer.
J. Mol. Biol. V. 383 167 2008
PubMed-ID: 18760285  |  Reference-DOI: 10.1016/J.JMB.2008.08.020
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PENICILLIN-BINDING PROTEIN 2
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET41
    Expression System Strain: BL21
    Expression System Taxid: 562
    Expression System Vector Type: PET
    Fragment: PBP2 (UNP RESIDUES 68-692)
    Gene: PBP2, SACOL1490
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 93062

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 47)

Asymmetric Unit (2, 47)
No.NameCountTypeFull Name
1LDA1Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE
2SO446Ligand/IonSULFATE ION
Biological Unit 1 (1, 15)
No.NameCountTypeFull Name
1LDA-1Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE
2SO415Ligand/IonSULFATE ION
Biological Unit 2 (1, 13)
No.NameCountTypeFull Name
1LDA-1Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE
2SO413Ligand/IonSULFATE ION
Biological Unit 3 (1, 9)
No.NameCountTypeFull Name
1LDA-1Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE
2SO49Ligand/IonSULFATE ION
Biological Unit 4 (2, 10)
No.NameCountTypeFull Name
1LDA1Ligand/IonLAURYL DIMETHYLAMINE-N-OXIDE
2SO49Ligand/IonSULFATE ION

(-) Sites  (44, 44)

Asymmetric Unit (44, 44)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETYR C:589 , GLY C:590 , THR C:593 , LYS C:605BINDING SITE FOR RESIDUE SO4 C 1
02AC2SOFTWAREASN C:386 , ARG C:387BINDING SITE FOR RESIDUE SO4 C 2
03AC3SOFTWAREHIS A:94 , HIS A:96 , ASN A:193 , GLY B:471 , ASN B:472BINDING SITE FOR RESIDUE SO4 A 3
04AC4SOFTWARELYS C:214 , ASN C:220 , ASN C:279 , SER C:670 , ASN C:677 , SER C:679 , GLY C:680 , GLN C:682BINDING SITE FOR RESIDUE SO4 C 4
05AC5SOFTWAREASN D:602 , GLY D:637 , HIS D:638BINDING SITE FOR RESIDUE SO4 D 5
06AC6SOFTWARESER C:398 , SER C:454 , THR C:584 , GLY C:585 , THR C:586BINDING SITE FOR RESIDUE SO4 C 6
07AC7SOFTWAREGLY D:590 , THR D:593 , LYS D:605BINDING SITE FOR RESIDUE SO4 D 7
08AC8SOFTWARESER B:398 , SER B:454 , THR B:584 , GLY B:585 , THR B:586BINDING SITE FOR RESIDUE SO4 B 8
09AC9SOFTWARELYS D:214 , ASN D:220 , ASN D:279 , SER D:670 , ASN D:677 , SER D:679 , GLY D:680 , GLN D:682BINDING SITE FOR RESIDUE SO4 D 9
10BC1SOFTWARESER A:639 , GLN A:640 , ARG D:117 , HIS D:121 , ASP D:125 , TYR D:126 , LYS D:127BINDING SITE FOR RESIDUE SO4 D 10
11BC2SOFTWAREASN A:602 , GLY A:637 , HIS A:638 , LYS D:127BINDING SITE FOR RESIDUE SO4 A 11
12BC3SOFTWARELYS A:628 , SER D:183BINDING SITE FOR RESIDUE SO4 A 12
13BC4SOFTWARESER D:398 , SER D:454 , THR D:584 , GLY D:585 , THR D:586BINDING SITE FOR RESIDUE SO4 D 14
14BC5SOFTWAREARG A:117 , HIS A:121 , TYR A:126 , LYS A:127BINDING SITE FOR RESIDUE SO4 A 15
15BC6SOFTWAREASP A:241 , HIS A:242 , PRO A:243 , LYS A:244 , ALA A:245BINDING SITE FOR RESIDUE SO4 A 17
16BC7SOFTWAREASP C:241 , HIS C:242 , PRO C:243 , LYS C:244 , ALA C:245BINDING SITE FOR RESIDUE SO4 C 18
17BC8SOFTWARETYR C:196 , ASN C:235 , ASN C:320 , LEU C:321 , GLY C:322BINDING SITE FOR RESIDUE SO4 C 19
18BC9SOFTWAREASP B:71 , HIS B:94 , HIS B:96BINDING SITE FOR RESIDUE SO4 B 20
19CC1SOFTWAREASN B:602 , GLY B:637 , HIS B:638BINDING SITE FOR RESIDUE SO4 B 21
20CC2SOFTWAREARG A:93 , ARG A:283BINDING SITE FOR RESIDUE SO4 A 22
21CC3SOFTWARELYS B:266 , THR B:687 , ASN B:688BINDING SITE FOR RESIDUE SO4 B 23
22CC4SOFTWARETYR A:589 , GLY A:590 , GLU A:592 , THR A:593BINDING SITE FOR RESIDUE SO4 A 24
23CC5SOFTWAREASN B:386 , ARG B:387BINDING SITE FOR RESIDUE SO4 B 25
24CC6SOFTWARESER A:398 , SER A:454 , SER A:569 , THR A:584 , GLY A:585 , THR A:586BINDING SITE FOR RESIDUE SO4 A 26
25CC7SOFTWAREARG C:93 , ARG C:283BINDING SITE FOR RESIDUE SO4 C 28
26CC8SOFTWAREASN A:386 , ARG A:387BINDING SITE FOR RESIDUE SO4 A 29
27CC9SOFTWARETHR D:342 , ASN D:345BINDING SITE FOR RESIDUE SO4 D 30
28DC1SOFTWAREASN C:602 , GLY C:637 , HIS C:638BINDING SITE FOR RESIDUE SO4 C 31
29DC2SOFTWARETRP B:415 , SER B:465 , ASN B:469BINDING SITE FOR RESIDUE SO4 B 32
30DC3SOFTWAREHIS C:121 , GLY C:122BINDING SITE FOR RESIDUE SO4 C 33
31DC4SOFTWAREHIS B:121 , GLY B:122 , SER C:639 , GLN C:640BINDING SITE FOR RESIDUE SO4 B 34
32DC5SOFTWARETYR B:589 , GLY B:590 , THR B:593 , LYS B:605BINDING SITE FOR RESIDUE SO4 B 35
33DC6SOFTWARELYS B:214 , ASN B:220 , ASN B:279BINDING SITE FOR RESIDUE SO4 B 36
34DC7SOFTWAREARG B:93 , ARG B:283BINDING SITE FOR RESIDUE SO4 B 37
35DC8SOFTWAREASP B:241 , HIS B:242 , PRO B:243 , LYS B:244 , ALA B:245BINDING SITE FOR RESIDUE SO4 B 38
36DC9SOFTWAREASP D:241 , HIS D:242 , LYS D:244 , ALA D:245BINDING SITE FOR RESIDUE SO4 D 39
37EC1SOFTWARETRP D:415 , SER D:465 , ASN D:469BINDING SITE FOR RESIDUE SO4 D 40
38EC2SOFTWARETYR A:173 , ARG A:177BINDING SITE FOR RESIDUE SO4 A 41
39EC3SOFTWARETYR B:173 , TYR B:176 , ARG B:177 , SER D:164 , ILE D:165 , GLY D:166BINDING SITE FOR RESIDUE SO4 B 42
40EC4SOFTWARESER A:465 , ASN A:469BINDING SITE FOR RESIDUE SO4 A 43
41EC5SOFTWARESER B:670 , ASN B:677 , SER B:679 , GLY B:680 , GLN B:682BINDING SITE FOR RESIDUE SO4 B 44
42EC6SOFTWARETHR A:342 , ASN A:345BINDING SITE FOR RESIDUE SO4 A 45
43EC7SOFTWAREGLN A:422 , GLY A:443 , THR A:444BINDING SITE FOR RESIDUE SO4 A 46
44EC8SOFTWARESER A:351 , TYR A:643 , LEU B:129 , GLY B:134 , TYR D:126 , ALA D:169 , ALA D:172 , TYR D:173 , TYR D:176BINDING SITE FOR RESIDUE LDA D 1

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Ile A:673 -Pro A:674
2Ile B:673 -Pro B:674
3Ile C:673 -Pro C:674
4Ile D:673 -Pro D:674

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3DWK)

(-) Exons   (0, 0)

(no "Exon" information available for 3DWK)

(-) Sequences/Alignments

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:598
 aligned with Q8KHY3_STAAU | Q8KHY3 from UniProtKB/TrEMBL  Length:727

    Alignment length:622
                                    80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690  
         Q8KHY3_STAAU    71 DPIPAKIYDKNGELVKTLDNGQRHEHVNLKDVPKSMKDAVLATEDNRFYEHGALDYKRLFGAIGKNLTGGFGSEGASTLTQQVVKDAFLSQHKSIGRKAQEAYLSYRLEQEYSKDDIFQVYLNKIYYSDGVTGIKAAAKYYFNKDLKDLNLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLMHYHKRITDKQWEDAKKIDLKANLVNRTPEERQNIDTNQDSEYNSYVNFVKSELMNNKAFKDENLGNVLQSGIKIYTNMDKDVQKTLQNDVDNGSFYKNKDQQVGATILDSKTGGLVAISGGRDFKDVVNRNQATDPHPTGSSLKPFLAYGPAIENMKWATNHAIQDESSYQVDGSTFRNYDTKSHGTVSIYDALRQSFNIPALKAWQSVKQNAGNDAPKKFAAKLGLNYEGDIGPSEVLGGSASEFSPTQLASAFAAIANGGTYNNAHSIQKVVTRDGETIEYDHTSHKAMSDYTAYMLAEMLKGTFKPYGSAYGHGVSGVNMGAKTGTGTYGAETYSQYNLPDNAAKDVWINGFTPQYTMSVWMGFSKVKQYGENSFVGHSQQEYPQFLYENVMSKISSRDGEDFKRPSSVSGSIPSINVSGSQDNNTTNRSTH 692
               SCOP domains d3dwka1 A:71-290 Penicillin-binding protein 2, PBP2                                                                                                                                                                              d3dwka2 A:296-692 Penicillin-binding protein 2, PBP2                                                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee.....eeeee.........hhhhhhhhhhhhhhhhhh.........hhhhhh.---------------.hhhhhhhhhhhh----..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhh.......hhhhhhhhhhh..hhhhhh...hhhhhhhhhhhhhhhhhhh...hhhhhhhhh...hhhhh..........-----hhhhhhhhhhhhhhhhhhhhhh..hhhhhh....eeee..hhhhhhhhhhhhhhh.......eeeeeeeee.....eeeee.................ee.hhhhhhhhhhhhhhhhh......eee.....................eeehhhhhhh.hhhhhhhhhhhhhhhh..hhhhhhhhhh........hhhhhh.....eehhhhhhhhhhhhh...eee....eeeee.....eee....eee..hhhhhhhhhhhhhh..................eeeeeeee...hhhhhh.....eeeeeeeeee...eeeeeeeee...hhhhh..eehhhhhhhhhhhhhhhhhhhh............eeee..eeee.............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3dwk A  71 DPIPAKIYDKNGELVKTLDNGQRHEHVNLKDVPKSMKDAVLATEDNRFYEHGALDYKRLFG---------------STLTQQVVKDAFL----SIGRKAQEAYLSYRLEQEYSKDDIFQVYLNKIYYSDGVTGIKAAAKYYFNKDLKDLNLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLMHYHKRITDKQWEDAKKIDLKANLVNRTPEERQN-----DSEYNSYVNFVKSELMNNKAFKDENLGNVLQSGIKIYTNMDKDVQKTLQNDVDNGSFYKNKDQQVGATILDSKTGGLVAISGGRDFKDVVNRNQATDPHPTGSSLKPFLAYGPAIENMKWATNHAIQDESSYQVDGSTFRNYDTKSHGTVSIYDALRQSFNIPALKAWQSVKQNAGNDAPKKFAAKLGLNYEGDIGPSEVLGGSASEFSPTQLASAFAAIANGGTYNNAHSIQKVVTRDGETIEYDHTSHKAMSDYTAYMLAEMLKGTFKPYGSAYGHGVSGVNMGAKTGTGTYGAETYSQYNLPDNAAKDVWINGFTPQYTMSVWMGFSKVKQYGENSFVGHSQQEYPQFLYENVMSKISSRDGEDFKRPSSVSGSIPSINVSGSQDNNTTNRSTH 692
                                    80        90       100       110       120       130|        -      |150        |-   |   170       180       190       200       210       220       230       240       250       260       270       280       290     | 300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690  
                                                                                      131             147         159  164                                                                                                                           290   296                                                                                                                                                                                                                                                                                                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:621
 aligned with Q8KHY3_STAAU | Q8KHY3 from UniProtKB/TrEMBL  Length:727

    Alignment length:622
                                    80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690  
         Q8KHY3_STAAU    71 DPIPAKIYDKNGELVKTLDNGQRHEHVNLKDVPKSMKDAVLATEDNRFYEHGALDYKRLFGAIGKNLTGGFGSEGASTLTQQVVKDAFLSQHKSIGRKAQEAYLSYRLEQEYSKDDIFQVYLNKIYYSDGVTGIKAAAKYYFNKDLKDLNLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLMHYHKRITDKQWEDAKKIDLKANLVNRTPEERQNIDTNQDSEYNSYVNFVKSELMNNKAFKDENLGNVLQSGIKIYTNMDKDVQKTLQNDVDNGSFYKNKDQQVGATILDSKTGGLVAISGGRDFKDVVNRNQATDPHPTGSSLKPFLAYGPAIENMKWATNHAIQDESSYQVDGSTFRNYDTKSHGTVSIYDALRQSFNIPALKAWQSVKQNAGNDAPKKFAAKLGLNYEGDIGPSEVLGGSASEFSPTQLASAFAAIANGGTYNNAHSIQKVVTRDGETIEYDHTSHKAMSDYTAYMLAEMLKGTFKPYGSAYGHGVSGVNMGAKTGTGTYGAETYSQYNLPDNAAKDVWINGFTPQYTMSVWMGFSKVKQYGENSFVGHSQQEYPQFLYENVMSKISSRDGEDFKRPSSVSGSIPSINVSGSQDNNTTNRSTH 692
               SCOP domains d3dwkb1 B:71-292 Pe nicillin-binding protein 2, PBP2                                                                                                                                                                          d3dwkb2 B:293-692 Penicillin-binding protein 2, PBP2                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeee.....eeeee.-.......hhhhhhhhhhhhhhhhhh.........hhhhhhhh...............hhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhh.......hhhhhhhhhhh..hhhhhh...hhhhhhhhhhhhhhhhhhh...hhhhhhhhh...hhhhh...............hhhhhhhhhhhhhhhhhhhhhh..hhhhhh....eeee..hhhhhhhhhhhhhhh.......eeeeeeeee.....eeeee.................ee.hhhhhhhhhhhhhhhhh......eee.....................eeehhhhhhh.hhhhhhhhhhhhhhhh..hhhhhhhhhh........hhhhhh.....eehhhhhhhhhhhhh...eee....eeeee.....eee....eee..hhhhhhhhhhhhhh..................eeeeeeee...hhhhhh.....eeeeeeeeee...eeeeeeeee...hhhhh..eehhhhhhhhhhhhhhhhhhhh............eeee..eeee.............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3dwk B  71 DPIPAKIYDKNGELVKTLD-GQRHEHVNLKDVPKSMKDAVLATEDNRFYEHGALDYKRLFGAIGKNLTGGFGSEGASTLTQQVVKDAFLSQHKSIGRKAQEAYLSYRLEQEYSKDDIFQVYLNKIYYSDGVTGIKAAAKYYFNKDLKDLNLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLMHYHKRITDKQWEDAKKIDLKANLVNRTPEERQNIDTNQDSEYNSYVNFVKSELMNNKAFKDENLGNVLQSGIKIYTNMDKDVQKTLQNDVDNGSFYKNKDQQVGATILDSKTGGLVAISGGRDFKDVVNRNQATDPHPTGSSLKPFLAYGPAIENMKWATNHAIQDESSYQVDGSTFRNYDTKSHGTVSIYDALRQSFNIPALKAWQSVKQNAGNDAPKKFAAKLGLNYEGDIGPSEVLGGSASEFSPTQLASAFAAIANGGTYNNAHSIQKVVTRDGETIEYDHTSHKAMSDYTAYMLAEMLKGTFKPYGSAYGHGVSGVNMGAKTGTGTYGAETYSQYNLPDNAAKDVWINGFTPQYTMSVWMGFSKVKQYGENSFVGHSQQEYPQFLYENVMSKISSRDGEDFKRPSSVSGSIPSINVSGSQDNNTTNRSTH 692
                                    80        |-|      100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690  
                                             89 |                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         
                                               91                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         


Chain C from PDB  Type:PROTEIN  Length:623
 aligned with Q8KHY3_STAAU | Q8KHY3 from UniProtKB/TrEMBL  Length:727

    Alignment length:623
                                    79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629       639       649       659       669       679       689   
         Q8KHY3_STAAU    70 QDPIPAKIYDKNGELVKTLDNGQRHEHVNLKDVPKSMKDAVLATEDNRFYEHGALDYKRLFGAIGKNLTGGFGSEGASTLTQQVVKDAFLSQHKSIGRKAQEAYLSYRLEQEYSKDDIFQVYLNKIYYSDGVTGIKAAAKYYFNKDLKDLNLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLMHYHKRITDKQWEDAKKIDLKANLVNRTPEERQNIDTNQDSEYNSYVNFVKSELMNNKAFKDENLGNVLQSGIKIYTNMDKDVQKTLQNDVDNGSFYKNKDQQVGATILDSKTGGLVAISGGRDFKDVVNRNQATDPHPTGSSLKPFLAYGPAIENMKWATNHAIQDESSYQVDGSTFRNYDTKSHGTVSIYDALRQSFNIPALKAWQSVKQNAGNDAPKKFAAKLGLNYEGDIGPSEVLGGSASEFSPTQLASAFAAIANGGTYNNAHSIQKVVTRDGETIEYDHTSHKAMSDYTAYMLAEMLKGTFKPYGSAYGHGVSGVNMGAKTGTGTYGAETYSQYNLPDNAAKDVWINGFTPQYTMSVWMGFSKVKQYGENSFVGHSQQEYPQFLYENVMSKISSRDGEDFKRPSSVSGSIPSINVSGSQDNNTTNRSTH 692
               SCOP domains d3dwkc1 C:70-292 Penicillin-binding protein 2, PBP2                                                                                                                                                                            d3dwkc2 C:293-692 Penicillin-binding protein 2, PBP2                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeee.....eeeee.........hhhhhhhhhhhhhhhhhh.........hhhhhhhh...............hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhh.......hhhhhhhhhhh..hhhhhh...hhhhhhhhhhhhhhhhhhh...hhhhhhhhh...hhhhh.....hhhhh.....hhhhhhhhhhhhhhhh........hhhhhh....eeee..hhhhhhhhhhhhhhh.......eeeeeeeee.....eeeee.................ee.hhhhhhhhhhhhhhhhh......eee.....................eeehhhhhhh.hhhhhhhhhhhhhhhh..hhhhhhhhhh........hhhhhh.....eehhhhhhhhhhhhh...eee....eeeee.....eee....eee..hhhhhhhhhhhhhh..................eeeeeeee...hhhhhh.....eeeeeeeeee...eeeeeeeee...hhhhh..eehhhhhhhhhhhhhhhhhhhh............eeee..eeee.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3dwk C  70 QDPIPAKIYDKNGELVKTLDNGQRHEHVNLKDVPKSMKDAVLATEDNRFYEHGALDYKRLFGAIGKNLTGGFGSEGASTLTQQVVKDAFLSQHKSIGRKAQEAYLSYRLEQEYSKDDIFQVYLNKIYYSDGVTGIKAAAKYYFNKDLKDLNLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLMHYHKRITDKQWEDAKKIDLKANLVNRTPEERQNIDTNQDSEYNSYVNFVKSELMNNKAFKDENLGNVLQSGIKIYTNMDKDVQKTLQNDVDNGSFYKNKDQQVGATILDSKTGGLVAISGGRDFKDVVNRNQATDPHPTGSSLKPFLAYGPAIENMKWATNHAIQDESSYQVDGSTFRNYDTKSHGTVSIYDALRQSFNIPALKAWQSVKQNAGNDAPKKFAAKLGLNYEGDIGPSEVLGGSASEFSPTQLASAFAAIANGGTYNNAHSIQKVVTRDGETIEYDHTSHKAMSDYTAYMLAEMLKGTFKPYGSAYGHGVSGVNMGAKTGTGTYGAETYSQYNLPDNAAKDVWINGFTPQYTMSVWMGFSKVKQYGENSFVGHSQQEYPQFLYENVMSKISSRDGEDFKRPSSVSGSIPSINVSGSQDNNTTNRSTH 692
                                    79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609       619       629       639       649       659       669       679       689   


Chain D from PDB  Type:PROTEIN  Length:602
 aligned with Q8KHY3_STAAU | Q8KHY3 from UniProtKB/TrEMBL  Length:727

    Alignment length:620
                                    82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692
         Q8KHY3_STAAU    73 IPAKIYDKNGELVKTLDNGQRHEHVNLKDVPKSMKDAVLATEDNRFYEHGALDYKRLFGAIGKNLTGGFGSEGASTLTQQVVKDAFLSQHKSIGRKAQEAYLSYRLEQEYSKDDIFQVYLNKIYYSDGVTGIKAAAKYYFNKDLKDLNLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLMHYHKRITDKQWEDAKKIDLKANLVNRTPEERQNIDTNQDSEYNSYVNFVKSELMNNKAFKDENLGNVLQSGIKIYTNMDKDVQKTLQNDVDNGSFYKNKDQQVGATILDSKTGGLVAISGGRDFKDVVNRNQATDPHPTGSSLKPFLAYGPAIENMKWATNHAIQDESSYQVDGSTFRNYDTKSHGTVSIYDALRQSFNIPALKAWQSVKQNAGNDAPKKFAAKLGLNYEGDIGPSEVLGGSASEFSPTQLASAFAAIANGGTYNNAHSIQKVVTRDGETIEYDHTSHKAMSDYTAYMLAEMLKGTFKPYGSAYGHGVSGVNMGAKTGTGTYGAETYSQYNLPDNAAKDVWINGFTPQYTMSVWMGFSKVKQYGENSFVGHSQQEYPQFLYENVMSKISSRDGEDFKRPSSVSGSIPSINVSGSQDNNTTNRSTH 692
               SCOP domains d3dwkd1 D:73-292    Penicillin-binding protein 2, PBP2                                                                                                                                                                      d3dwkd2 D:293-692 Penicillin-binding protein 2, PBP2                                                                                                                                                                                                                                                                                                                                                             SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....eeeee.---.....hhhhhhhhhhhhhhhhhhhhhhh....hhhhhh---------------..hhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhh.......hhhhhhhhhhh..hhhhhh...hhhhhhhhhhhhhhhhhhh...hhhhhhhhh...hhhhh...hhhhhh......hhhhhhhhhhhhhhhhhhhhhh..hhhhhh....eeee..hhhhhhhhhhhhhhh.......eeeeeeeee.....eeeee.................ee.hhhhhhhhhhhhhhhhhh.....eee.....................eeehhhhhhh.hhhhhhhhhhhhhhhh..hhhhhhhhhh........hhhhhh.....eehhhhhhhhhhhhh...eee....eeeee.....eee....eee..hhhhhhhhhhhhhh..................eeeeeeee...hhhhhh.....eeeeeeeeee...eeeeeeeee...hhhhh..eehhhhhhhhhhhhhhhhhhhh............eeee..eeee.............. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3dwk D  73 IPAKIYDKNGELVKTLD---RHEHVNLKDVPKSMKDAVLATEDNRFYEHGALDYKRLF---------------ASTLTQQVVKDAFLSQHKSIGRKAQEAYLSYRLEQEYSKDDIFQVYLNKIYYSDGVTGIKAAAKYYFNKDLKDLNLAEEAYLAGLPQVPNNYNIYDHPKAAEDRKNTVLYLMHYHKRITDKQWEDAKKIDLKANLVNRTPEERQNIDTNQDSEYNSYVNFVKSELMNNKAFKDENLGNVLQSGIKIYTNMDKDVQKTLQNDVDNGSFYKNKDQQVGATILDSKTGGLVAISGGRDFKDVVNRNQATDPHPTGSSLKPFLAYGPAIENMKWATNHAIQDESSYQVDGSTFRNYDTKSHGTVSIYDALRQSFNIPALKAWQSVKQNAGNDAPKKFAAKLGLNYEGDIGPSEVLGGSASEFSPTQLASAFAAIANGGTYNNAHSIQKVVTRDGETIEYDHTSHKAMSDYTAYMLAEMLKGTFKPYGSAYGHGVSGVNMGAKTGTGTYGAETYSQYNLPDNAAKDVWINGFTPQYTMSVWMGFSKVKQYGENSFVGHSQQEYPQFLYENVMSKISSRDGEDFKRPSSVSGSIPSINVSGSQDNNTTNRSTH 692
                                    82      |  -|      102       112       122       | -         -   |   152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692
                                           89  93                                  130             146
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (2, 8)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Multi-domain proteins (alpha and beta) (2421)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3DWK)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (Q8KHY3_STAAU | Q8KHY3)
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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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

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(-) Related Entries Specified in the PDB File

2olu LONGER VERSION OF PROTEIN, APOENZYME
2olv LONGER VERSION OF PROTEIN, MOENOMYCIN COMPLEX