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(-) Description

Title :  NATIVE ANSMECPE WITH BOUND ADOMET AND KP18CYS PEPTIDE
 
Authors :  P. J. Goldman, C. L. Drennan
Date :  10 Apr 13  (Deposition) - 08 May 13  (Release) - 12 Jun 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.83
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,D  (1x)
Biol. Unit 2:  B,C  (1x)
Keywords :  Adomet Radical Fold, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. J. Goldman, T. L. Grove, L. A. Sites, M. I. Mclaughlin, S. J. Booker, C. L. Drennan
X-Ray Structure Of An Adomet Radical Activase Reveals An Anaerobic Solution For Formylglycine Posttranslational Modification.
Proc. Natl. Acad. Sci. Usa V. 110 8519 2013
PubMed-ID: 23650368  |  Reference-DOI: 10.1073/PNAS.1302417110

(-) Compounds

Molecule 1 - ANAEROBIC SULFATASE-MATURATING ENZYME
    Chains: A, B
    EC Number: 1.8.98.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: CPF_0616
    Organism Scientific: CLOSTRIDIUM PERFRINGENS
    Organism Taxid: 195103
    Strain: ATCC 13124 / NCTC 8237 / TYPE A
    Synonym: ANSME, CYS-TYPE SULFATASE-ACTIVATING ENZYME
 
Molecule 2 - KP18CYS PEPTIDE
    Chains: C, D
    Engineered: YES
    Other Details: STANDARD FMOC CHEMISTRY
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A  D
Biological Unit 2 (1x):  BC 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 26)

Asymmetric Unit (4, 26)
No.NameCountTypeFull Name
1CL3Ligand/IonCHLORIDE ION
2GOL15Ligand/IonGLYCEROL
3SAM2Ligand/IonS-ADENOSYLMETHIONINE
4SF46Ligand/IonIRON/SULFUR CLUSTER
Biological Unit 1 (3, 12)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL8Ligand/IonGLYCEROL
3SAM1Ligand/IonS-ADENOSYLMETHIONINE
4SF43Ligand/IonIRON/SULFUR CLUSTER
Biological Unit 2 (3, 11)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL7Ligand/IonGLYCEROL
3SAM1Ligand/IonS-ADENOSYLMETHIONINE
4SF43Ligand/IonIRON/SULFUR CLUSTER

(-) Sites  (28, 28)

Asymmetric Unit (28, 28)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:255 , GLY A:256 , CYS A:261 , THR A:262 , GLN A:264 , CYS A:276 , CYS A:330 , ARG A:332BINDING SITE FOR RESIDUE SF4 A 501
02AC2SOFTWARECYS A:317 , CYS A:320 , CYS A:326 , CYS A:348 , LYS A:352BINDING SITE FOR RESIDUE SF4 A 502
03AC3SOFTWARECYS A:15 , CYS A:19 , CYS A:22 , GLY A:66 , ASN A:100 , ARG A:134 , SAM A:504BINDING SITE FOR RESIDUE SF4 A 503
04AC4SOFTWARETYR A:21 , CYS A:22 , PHE A:23 , TYR A:24 , GLN A:64 , GLY A:65 , GLY A:66 , GLU A:67 , GLN A:98 , THR A:99 , SER A:122 , ARG A:134 , LEU A:163 , VAL A:165 , ILE A:192 , ASN A:193 , CYS A:194 , LEU A:195 , SF4 A:503 , HOH A:608 , CYS D:7BINDING SITE FOR RESIDUE SAM A 504
05AC5SOFTWARETYR A:239 , GLY A:256 , MET A:257 , CYS A:326 , GLY A:329 , CYS A:330 , TYR A:351 , PHE A:355 , HOH A:745 , HOH A:759BINDING SITE FOR RESIDUE GOL A 505
06AC6SOFTWARELYS A:154 , GLU A:159 , PHE A:160 , ASP A:185 , PHE A:186 , LYS A:187 , HOH A:685 , HOH A:821 , ARG D:11BINDING SITE FOR RESIDUE GOL A 506
07AC7SOFTWARETHR A:69 , GLY A:72 , TRP A:108 , HOH A:787BINDING SITE FOR RESIDUE GOL A 507
08AC8SOFTWARETYR A:88 , LYS A:89 , ASN A:90 , HOH A:699 , GOL B:508BINDING SITE FOR RESIDUE GOL A 508
09AC9SOFTWAREALA A:171 , ARG A:172 , HIS A:173 , VAL A:174 , ASN A:175 , ASN A:220 , HOH A:613 , HOH A:719BINDING SITE FOR RESIDUE GOL A 509
10BC1SOFTWARETRP A:225 , ARG A:234 , VAL A:235 , HOH A:637 , HOH A:667BINDING SITE FOR RESIDUE GOL A 510
11BC2SOFTWARESER A:46 , ARG A:50 , ASN A:53BINDING SITE FOR RESIDUE GOL A 511
12BC3SOFTWAREASP A:41 , LYS A:78 , HOH A:694 , HOH A:716BINDING SITE FOR RESIDUE GOL A 512
13BC4SOFTWAREASN A:131 , SER A:144 , HOH A:740BINDING SITE FOR RESIDUE CL A 513
14BC5SOFTWAREPHE A:191 , ILE A:237 , ARG A:238 , TYR A:239 , HOH A:672 , HOH A:778BINDING SITE FOR RESIDUE CL A 514
15BC6SOFTWARECYS B:255 , GLY B:256 , CYS B:261 , THR B:262 , GLN B:264 , CYS B:276 , CYS B:330 , ARG B:332BINDING SITE FOR RESIDUE SF4 B 501
16BC7SOFTWAREGLU B:316 , CYS B:317 , CYS B:320 , CYS B:326 , CYS B:348 , LYS B:352BINDING SITE FOR RESIDUE SF4 B 502
17BC8SOFTWARECYS B:15 , CYS B:19 , CYS B:22 , HIS B:25 , GLY B:66 , ASN B:100 , ARG B:134 , SAM B:504BINDING SITE FOR RESIDUE SF4 B 503
18BC9SOFTWARETYR B:21 , CYS B:22 , PHE B:23 , TYR B:24 , GLY B:65 , GLY B:66 , GLU B:67 , GLN B:98 , THR B:99 , SER B:122 , ARG B:134 , VAL B:165 , ILE B:192 , ASN B:193 , CYS B:194 , LEU B:195 , SF4 B:503 , HOH B:605BINDING SITE FOR RESIDUE SAM B 504
19CC1SOFTWARETYR B:239 , GLY B:256 , CYS B:326 , GLY B:329 , TYR B:351 , PHE B:355 , HOH B:696 , HOH B:738BINDING SITE FOR RESIDUE GOL B 505
20CC2SOFTWARELYS B:154 , GLU B:159 , PHE B:160 , ASP B:185 , LYS B:187 , HOH B:636 , ARG C:11BINDING SITE FOR RESIDUE GOL B 506
21CC3SOFTWARETHR B:69 , LEU B:70 , GLY B:72 , TRP B:108BINDING SITE FOR RESIDUE GOL B 507
22CC4SOFTWAREGOL A:508 , HOH A:699 , ASN B:16 , THR B:102 , ASP B:136 , LYS B:145 , HOH B:675BINDING SITE FOR RESIDUE GOL B 508
23CC5SOFTWAREALA B:171 , ARG B:172 , HIS B:173 , VAL B:174 , ASN B:175 , LYS B:216 , ASN B:220BINDING SITE FOR RESIDUE GOL B 509
24CC6SOFTWARETRP B:225 , ARG B:234 , VAL B:235 , ASP B:241 , HOH B:635BINDING SITE FOR RESIDUE GOL B 510
25CC7SOFTWARELYS B:49 , ARG B:50BINDING SITE FOR RESIDUE GOL B 511
26CC8SOFTWAREPHE B:191 , ILE B:237 , TYR B:239BINDING SITE FOR RESIDUE CL B 512
27CC9SOFTWAREGLN B:64 , GLN B:98 , LEU B:118 , GLY B:120 , GLU B:159 , PHE B:160 , ASN B:161 , PHE B:188 , GLN B:190 , ARG B:238 , GLU B:245 , SER B:253 , CYS B:255 , CYS B:330 , GOL B:506 , HOH B:715 , HOH B:717 , HOH C:101 , HOH C:102 , HOH C:103 , HOH C:104 , HOH C:105BINDING SITE FOR CHAIN C OF KP18CYS PEPTIDE
28DC1SOFTWAREGLN A:64 , GLN A:98 , LEU A:118 , GLY A:120 , GLU A:159 , PHE A:160 , ASN A:161 , PHE A:188 , GLN A:190 , ARG A:238 , GLU A:245 , SER A:252 , SER A:253 , CYS A:255 , ASN A:258 , SAM A:504 , GOL A:506 , HOH D:101 , HOH D:102 , HOH D:103 , HOH D:104 , HOH D:105 , HOH D:106BINDING SITE FOR CHAIN D OF KP18CYS PEPTIDE

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4K38)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Pro A:2 -Pro A:3
2Gly A:65 -Gly A:66
3Gly B:65 -Gly B:66

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4K38)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4K38)

(-) Exons   (0, 0)

(no "Exon" information available for 4K38)

(-) 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:369
                                                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...............................hhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhhhhhhhh....eeeeeeee.....hhhhhhhhhhh..eeeee...hhhhhhhhh.......hhhhhhhhhhhhhhhh.eeeeeeeehhhhhhhhhhhhhhhhhh...eeeeee................hhhhhhhhhhhhhhhhhhhhhh....eehhhhhhhhhhhhh...............ee....eee.hhhhhhhhhh.ee....hhhhhhhhhhhhhhhhhh...hhhhhh..hhhhhh..hhhhh............hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4k38 A   2 PPLSLLIKPASSGCNLKCTYCFYHSLSDNRNVKSYGIMRDEVLESMVKRVLNEANGHCSFAFQGGEPTLAGLEFFEKLMELQRKHNYKNLKIYNSLQTNGTLIDESWAKFLSENKFLVGLSMDGPKEIHNLNRKDCCGLDTFSKVERAAELFKKYKVEFNILCVVTSNTARHVNKVYKYFKEKDFKFLQFINCLDPLYEEKGKYNYSLKPKDYTKFLKNLFDFWYEDFLNGNRVSIRYFDGLLETILLGKSSSCGMNGTCTCQFVVESDGSVYPCDFYVLDKWRLGNIQDMTMKELFETNKNHEFIKLSFKVHEECKKCKWFRLCKGGCRRCRDSKEDSALELNYYCQSYKEFFEYAFPRLINVANNIK 370
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361         


Chain B from PDB  Type:PROTEIN  Length:362
                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.........................hhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhhhhhhhhhh....eeeeeeee.....hhhhhhhhhhh..eeeee...hhhhhhh.........hhhhhhhhhhhhhhh..eeeeeeeehhhhhhhhhhhhhhhhhh...eeeeee................hhhhhhhhhhhhhhhhhhhhhh....eehhhhhhhhhhhhh...............ee....eee.hhhhhhhhhh.ee....hhhhhhhhhhhhhhhhhh...hhhhhh..hhhhhh..hhhhh............hhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4k38 B   2 PPLSLLIKPASSGCNLKCTYCFYHSVKSYGIMRDEVLESMVKRVLNEANGHCSFAFQGGEPTLAGLEFFEKLMELQRKHNYKNLKIYNSLQTNGTLIDESWAKFLSENKFLVGLSMDGPKEIHNLNRKDCCGLDTFSKVERAAELFKKYKVEFNILCVVTSNTARHVNKVYKYFKEKDFKFLQFINCLDPLYEEKGKYNYSLKPKDYTKFLKNLFDFWYEDFLNGNRVSIRYFDGLLETILLGKSSSCGMNGTCTCQFVVESDGSVYPCDFYVLDKWRLGNIQDMTMKELFETNKNHEFIKLSFKVHEECKKCKWFRLCKGGCRRCRDSKEDSALELNYYCQSYKEFFEYAFPRLINVANNI 369
                                    11        21    ||  37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367  
                                                   26|                                                                                                                                                                                                                                                                                                                                                
                                                    33                                                                                                                                                                                                                                                                                                                                                


Chain C from PDB  Type:PROTEIN  Length:11
                                           
               SCOP domains ----------- SCOP domains
               CATH domains ----------- CATH domains
               Pfam domains ----------- Pfam domains
         Sec.struct. author ........... Sec.struct. author
                 SAPs(SNPs) ----------- SAPs(SNPs)
                    PROSITE ----------- PROSITE
                 Transcript ----------- Transcript
                 4k38 C   3 TSPMCAPARSM  13
                                    12 


Chain D from PDB  Type:PROTEIN  Length:10
                                          
               SCOP domains ---------- SCOP domains
               CATH domains ---------- CATH domains
               Pfam domains ---------- Pfam domains
         Sec.struct. author .......... Sec.struct. author
                 SAPs(SNPs) ---------- SAPs(SNPs)
                    PROSITE ---------- PROSITE
                 Transcript ---------- Transcript
                 4k38 D   3 TSPMCAPARS  12
                                    12
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    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4K38)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4K38)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4K38)

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

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        ANSME_CLOP1 | Q0TTH1: 4k36 4k37 4k39

(-) Related Entries Specified in the PDB File

4k36 4k37 4k39