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(-) Description

Title :  EBOLA VIRUS VP30 CTD BOUND TO NUCLEOPROTEIN
 
Authors :  R. N. Kirchdoerfer, C. L. Moyer, D. M. Abelson, E. O. Saphire
Date :  26 Aug 16  (Deposition) - 28 Sep 16  (Release) - 02 Nov 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I,J
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Biol. Unit 4:  G,H  (1x)
Biol. Unit 5:  I,J  (1x)
Keywords :  Transcription, Replication, Regulator, Co-Factor, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. N. Kirchdoerfer, C. L. Moyer, D. M. Abelson, E. O. Saphire
The Ebola Virus Vp30-Np Interaction Is A Regulator Of Viral Rna Synthesis.
Plos Pathog. V. 12 05937 2016
PubMed-ID: 27755595  |  Reference-DOI: 10.1371/JOURNAL.PPAT.1005937

(-) Compounds

Molecule 1 - FUSION PROTEIN OF NUCLEOPROTEIN AND MINOR NUCLEOPROTEIN VP30
    Chains: A, B, C, D, E, F, G, H, I, J
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET46
    Expression System Strain: ROSETTA2 PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP P18272 RESIDUES 600-627,UNP Q05323 RESIDUES 139-288
    Gene: NP, VP30
    Organism Common: ZEBOV
    Organism Scientific: ZAIRE EBOLAVIRUS (STRAIN MAYINGA-76)
    Organism Taxid: 128952
    Strain: MAYINGA-76
    Synonym: NUCLEOCAPSID PROTEIN,PROTEIN N,TRANSCRIPTION ACTIVATOR VP30

 Structural Features

(-) Chains, Units

  12345678910
Asymmetric Unit : ABCDEFGHIJ
Biological Unit 1 (1x): AB        
Biological Unit 2 (1x):   CD      
Biological Unit 3 (1x):     EF    
Biological Unit 4 (1x):       GH  
Biological Unit 5 (1x):         IJ

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 27)

Asymmetric Unit (1, 27)
No.NameCountTypeFull Name
1SO427Ligand/IonSULFATE ION
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1SO44Ligand/IonSULFATE ION
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1SO44Ligand/IonSULFATE ION
Biological Unit 3 (1, 7)
No.NameCountTypeFull Name
1SO47Ligand/IonSULFATE ION
Biological Unit 4 (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION
Biological Unit 5 (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION

(-) Sites  (27, 27)

Asymmetric Unit (27, 27)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPHE A:181 , SER A:182 , LYS A:183 , HIS A:215 , HOH A:404 , HOH A:406 , HOH A:419 , ARG B:179 , HOH B:422 , HOH B:446binding site for residue SO4 A 301
02AC2SOFTWARELYS A:183 , HIS A:215 , SER A:216 , HOH A:402 , HOH A:447binding site for residue SO4 A 302
03AC3SOFTWARELYS B:183 , HIS B:215 , SER B:216 , HOH B:404 , HOH B:410binding site for residue SO4 B 301
04AC4SOFTWAREHOH A:423 , HOH A:448 , PHE B:181 , SER B:182 , LYS B:183 , HIS B:215 , HOH B:401 , HOH B:410 , HOH B:413 , HOH B:422binding site for residue SO4 B 302
05AC5SOFTWAREPHE C:181 , SER C:182 , LYS C:183 , HIS C:215 , HOH C:407 , HOH C:414 , HOH C:423 , HOH C:425 , HOH C:426binding site for residue SO4 C 301
06AC6SOFTWARELYS C:183 , HIS C:215 , SER C:216 , HOH C:420 , HOH C:423 , HOH C:434 , HOH C:450binding site for residue SO4 C 302
07AC7SOFTWAREARG C:179 , PHE D:181 , SER D:182 , LYS D:183 , HIS D:215 , HOH D:403 , HOH D:421 , HOH D:429 , HOH D:449binding site for residue SO4 D 301
08AC8SOFTWAREHOH C:447 , LYS D:183 , HIS D:215 , SER D:216 , HOH D:413binding site for residue SO4 D 302
09AC9SOFTWAREPHE E:181 , SER E:182 , LYS E:183 , HIS E:215 , HOH E:403 , HOH E:420 , HOH E:446 , ARG F:179 , HOH F:427binding site for residue SO4 E 301
10AD1SOFTWARELYS E:183 , HIS E:215 , SER E:216 , HOH E:419binding site for residue SO4 E 302
11AD2SOFTWAREARG E:213 , PHE E:222 , HOH E:404 , HOH E:421 , THR F:114binding site for residue SO4 E 303
12AD3SOFTWAREHOH E:437 , HOH E:438 , PHE F:181 , SER F:182 , LYS F:183 , HIS F:215 , HOH F:406 , HOH F:409 , HOH F:411binding site for residue SO4 F 301
13AD4SOFTWARELYS F:183 , HIS F:215 , SER F:216 , HOH F:405binding site for residue SO4 F 302
14AD5SOFTWAREASP F:231 , ARG F:232binding site for residue SO4 F 303
15AD6SOFTWARETHR E:114 , ARG F:213 , PHE F:222 , HOH F:401binding site for residue SO4 F 304
16AD7SOFTWAREPHE G:181 , SER G:182 , LYS G:183 , HIS G:215 , HOH G:412 , HOH G:414 , HOH G:420 , HOH G:424binding site for residue SO4 G 301
17AD8SOFTWARELYS G:183 , HIS G:215 , SER G:216 , HOH G:418binding site for residue SO4 G 302
18AD9SOFTWAREARG G:196 , ASN G:244binding site for residue SO4 G 303
19AE1SOFTWAREARG G:179 , PHE H:181 , SER H:182 , LYS H:183 , HIS H:215 , HOH H:426 , HOH H:427 , HOH H:429binding site for residue SO4 H 301
20AE2SOFTWARELYS H:183 , HIS H:215 , SER H:216 , HOH H:413binding site for residue SO4 H 302
21AE3SOFTWARETHR G:114 , ARG H:213 , HOH H:411binding site for residue SO4 H 303
22AE4SOFTWARESER I:182 , LYS I:183 , HIS I:215 , HOH I:408 , HOH I:411 , HOH I:423 , ARG J:179 , HOH J:431 , HOH J:462binding site for residue SO4 I 301
23AE5SOFTWARELYS I:183 , HIS I:215 , SER I:216 , HOH I:409 , HOH I:425binding site for residue SO4 I 302
24AE6SOFTWAREASP H:231 , ARG H:232 , ARG I:160binding site for residue SO4 I 303
25AE7SOFTWAREARG I:179 , HOH I:437 , HOH I:455 , PHE J:181 , SER J:182 , LYS J:183 , HIS J:215 , HOH J:408 , HOH J:409 , HOH J:431binding site for residue SO4 J 301
26AE8SOFTWARELYS J:183 , HIS J:215 , SER J:216 , HOH J:403 , HOH J:429 , HOH J:438binding site for residue SO4 J 302
27AE9SOFTWARETHR I:114 , ARG J:213 , PHE J:222 , HOH J:414binding site for residue SO4 J 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5T3T)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5T3T)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5T3T)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5T3T)

(-) Exons   (0, 0)

(no "Exon" information available for 5T3T)

(-) 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:139
                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t3t A 113 PTVAPPAPVYRDHPKITLLTLIKTAEHWARQDIRTIEDSKLRALLTLCAVMTRKFSKSQLSLLCETHLRREGLGQDQAEPVLEVYQRLHSDKGGSFEAALWQQWDRQSLIMFITAFLNIALQLPCESSAVVVSGLRTLV 265
                                   122  ||   146       156       166       176       186       196       206       216       226       236       246       256         
                                      125|                                                                                                                             
                                       140                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:136
                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t3t B 114 TVAPPAPVYRPKITLLTLIKTAEHWARQDIRTIEDSKLRALLTLCAVMTRKFSKSQLSLLCETHLRREGLGQDQAEPVLEVYQRLHSDKGGSFEAALWQQWDRQSLIMFITAFLNIALQLPCESSAVVVSGLRTLV 265
                                   123|      149       159       169       179       189       199       209       219       229       239       249       259      
                                   123|                                                                                                                             
                                    140                                                                                                                             


Chain C from PDB  Type:PROTEIN  Length:136
                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t3t C 114 TVAPPAPVYRKITLLTLIKTAEHWARQDIRTIEDSKLRALLTLCAVMTRKFSKSQLSLLCETHLRREGLGQDQAEPVLEVYQRLHSDKGGSFEAALWQQWDRQSLIMFITAFLNIALQLPCESSAVVVSGLRTLVP 266
                                   123|      150       160       170       180       190       200       210       220       230       240       250       260      
                                   123|                                                                                                                             
                                    141                                                                                                                             


Chain D from PDB  Type:PROTEIN  Length:136
                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t3t D 114 TVAPPAPVYRPKITLLTLIKTAEHWARQDIRTIEDSKLRALLTLCAVMTRKFSKSQLSLLCETHLRREGLGQDQAEPVLEVYQRLHSDKGGSFEAALWQQWDRQSLIMFITAFLNIALQLPCESSAVVVSGLRTLV 265
                                   123|      149       159       169       179       189       199       209       219       229       239       249       259      
                                   123|                                                                                                                             
                                    140                                                                                                                             


Chain E from PDB  Type:PROTEIN  Length:137
                                                                                                                                                                         
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t3t E 114 TVAPPAPVYRPKITLLTLIKTAEHWARQDIRTIEDSKLRALLTLCAVMTRKFSKSQLSLLCETHLRREGLGQDQAEPVLEVYQRLHSDKGGSFEAALWQQWDRQSLIMFITAFLNIALQLPCESSAVVVSGLRTLVP 266
                                   123|      149       159       169       179       189       199       209       219       229       239       249       259       
                                   123|                                                                                                                              
                                    140                                                                                                                              


Chain F from PDB  Type:PROTEIN  Length:136
                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t3t F 114 TVAPPAPVYRKITLLTLIKTAEHWARQDIRTIEDSKLRALLTLCAVMTRKFSKSQLSLLCETHLRREGLGQDQAEPVLEVYQRLHSDKGGSFEAALWQQWDRQSLIMFITAFLNIALQLPCESSAVVVSGLRTLVP 266
                                   123|      150       160       170       180       190       200       210       220       230       240       250       260      
                                   123|                                                                                                                             
                                    141                                                                                                                             


Chain G from PDB  Type:PROTEIN  Length:136
                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t3t G 113 PTVAPPAPVYRKITLLTLIKTAEHWARQDIRTIEDSKLRALLTLCAVMTRKFSKSQLSLLCETHLRREGLGQDQAEPVLEVYQRLHSDKGGSFEAALWQQWDRQSLIMFITAFLNIALQLPCESSAVVVSGLRTLV 265
                                   122||     149       159       169       179       189       199       209       219       229       239       249       259      
                                    123|                                                                                                                            
                                     141                                                                                                                            


Chain H from PDB  Type:PROTEIN  Length:136
                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t3t H 114 TVAPPAPVYRKITLLTLIKTAEHWARQDIRTIEDSKLRALLTLCAVMTRKFSKSQLSLLCETHLRREGLGQDQAEPVLEVYQRLHSDKGGSFEAALWQQWDRQSLIMFITAFLNIALQLPCESSAVVVSGLRTLVP 266
                                   123|      150       160       170       180       190       200       210       220       230       240       250       260      
                                   123|                                                                                                                             
                                    141                                                                                                                             


Chain I from PDB  Type:PROTEIN  Length:136
                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t3t I 114 TVAPPAPVYRPKITLLTLIKTAEHWARQDIRTIEDSKLRALLTLCAVMTRKFSKSQLSLLCETHLRREGLGQDQAEPVLEVYQRLHSDKGGSFEAALWQQWDRQSLIMFITAFLNIALQLPCESSAVVVSGLRTLV 265
                                   123|      149       159       169       179       189       199       209       219       229       239       249       259      
                                   123|                                                                                                                             
                                    140                                                                                                                             


Chain J from PDB  Type:PROTEIN  Length:135
                                                                                                                                                                       
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t3t J 114 TVAPPAPVYRKITLLTLIKTAEHWARQDIRTIEDSKLRALLTLCAVMTRKFSKSQLSLLCETHLRREGLGQDQAEPVLEVYQRLHSDKGGSFEAALWQQWDRQSLIMFITAFLNIALQLPCESSAVVVSGLRTLV 265
                                   123|      150       160       170       180       190       200       210       220       230       240       250       260     
                                   123|                                                                                                                            
                                    141
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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  (0, 0)

(no "SCOP Domain" information available for 5T3T)

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(no "CATH Domain" information available for 5T3T)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5T3T)

(-) Gene Ontology  (12, 16)

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  5t3t
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  VP30_EBOZM | Q05323
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 Related Entries

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

UniProtKB/Swiss-Prot
        NCAP_EBOZM | P18272: 4qaz 4qb0 4ypi 4z9p 4zta 4ztg 4zti
        VP30_EBOZM | Q05323: 2i8b 5dvw

(-) Related Entries Specified in the PDB File

5t3w