Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
(-)Biological Unit 2
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)
Image Biological Unit 2
Biological Unit 2  (Jmol Viewer)

(-) Description

Title :  CRYSTAL STRUCTURE OF NI-CONTAINING SUPEROXIDE DISMUTASE WITH NI-LIGATION CORRESPONDING TO THE THIOSULFATE-REDUCED STATE
 
Authors :  J. Wuerges, J. -W. Lee, Y. -I. Yim, H. -S. Yim, S. -O. Kang, K. Djinovic Ca
Date :  16 Jul 03  (Deposition) - 18 May 04  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1:  A,B,C,D,E,F  (1x)
Biol. Unit 2:  G,H,I,J,K,L  (1x)
Keywords :  Homohexamer Of Four-Helix Bundles, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Wuerges, J. -W. Lee, Y. -I. Yim, H. -S. Yim, S. -O. Kang, K. Djinovic Carugo
Crystal Structure Of Nickel-Containing Superoxide Dismutase Reveals Another Type Of Active Site
Proc. Natl. Acad. Sci. Usa V. 101 8569 2004
PubMed-ID: 15173586  |  Reference-DOI: 10.1073/PNAS.0308514101

(-) Compounds

Molecule 1 - SUPEROXIDE DISMUTASE [NI]
    Chains: A, B, C, D, E, F, G, H, I, J, K, L
    EC Number: 1.15.1.1
    Organism Scientific: STREPTOMYCES SEOULENSIS
    Organism Taxid: 73044
    Other Details: THE ASYMMETRIC UNIT CONTAINS TWO HEXAMERS
    Synonym: NICKEL-CONTAINING SUPEROXIDE DISMUTASE

 Structural Features

(-) Chains, Units

  123456789101112
Asymmetric Unit : ABCDEFGHIJKL
Biological Unit 1 (1x): ABCDEF      
Biological Unit 2 (1x):       GHIJKL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 36)

Asymmetric Unit (3, 36)
No.NameCountTypeFull Name
1NI12Ligand/IonNICKEL (II) ION
2SO412Ligand/IonSULFATE ION
3THJ12Ligand/IonTHIOSULFATE
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1NI-1Ligand/IonNICKEL (II) ION
2SO46Ligand/IonSULFATE ION
3THJ6Ligand/IonTHIOSULFATE
Biological Unit 2 (2, 12)
No.NameCountTypeFull Name
1NI-1Ligand/IonNICKEL (II) ION
2SO46Ligand/IonSULFATE ION
3THJ6Ligand/IonTHIOSULFATE

(-) Sites  (36, 36)

Asymmetric Unit (36, 36)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:1 , CYS A:2 , ASP A:3 , CYS A:6BINDING SITE FOR RESIDUE NI A 118
02AC2SOFTWAREHIS B:1 , CYS B:2 , ASP B:3 , CYS B:6BINDING SITE FOR RESIDUE NI B 118
03AC3SOFTWAREHIS C:1 , CYS C:2 , ASP C:3 , CYS C:6BINDING SITE FOR RESIDUE NI C 118
04AC4SOFTWAREHIS D:1 , CYS D:2 , ASP D:3 , CYS D:6BINDING SITE FOR RESIDUE NI D 118
05AC5SOFTWAREHIS E:1 , CYS E:2 , ASP E:3 , CYS E:6BINDING SITE FOR RESIDUE NI E 118
06AC6SOFTWAREHIS F:1 , CYS F:2 , ASP F:3 , CYS F:6BINDING SITE FOR RESIDUE NI F 118
07AC7SOFTWAREHIS G:1 , CYS G:2 , CYS G:6BINDING SITE FOR RESIDUE NI G 118
08AC8SOFTWAREHIS H:1 , CYS H:2 , ASP H:3 , CYS H:6BINDING SITE FOR RESIDUE NI H 118
09AC9SOFTWAREHIS I:1 , CYS I:2 , ASP I:3 , CYS I:6BINDING SITE FOR RESIDUE NI I 118
10BC1SOFTWAREHIS J:1 , CYS J:2 , ASP J:3 , CYS J:6BINDING SITE FOR RESIDUE NI J 118
11BC2SOFTWAREHIS K:1 , CYS K:2 , ASP K:3 , CYS K:6BINDING SITE FOR RESIDUE NI K 118
12BC3SOFTWAREHIS L:1 , CYS L:2 , ASP L:3 , CYS L:6BINDING SITE FOR RESIDUE NI L 118
13BC4SOFTWAREPRO A:5 , GLY A:7 , TYR A:9 , LYS A:64BINDING SITE FOR RESIDUE SO4 A 9001
14BC5SOFTWAREPRO B:5 , GLY B:7 , TYR B:9 , LYS B:64BINDING SITE FOR RESIDUE SO4 B 9002
15BC6SOFTWAREPRO C:5 , GLY C:7 , TYR C:9 , LYS C:64BINDING SITE FOR RESIDUE SO4 C 9003
16BC7SOFTWAREPRO D:5 , GLY D:7 , TYR D:9 , LYS D:64BINDING SITE FOR RESIDUE SO4 D 9004
17BC8SOFTWAREPRO E:5 , GLY E:7 , TYR E:9 , LYS E:64BINDING SITE FOR RESIDUE SO4 E 9005
18BC9SOFTWAREPRO F:5 , GLY F:7 , TYR F:9 , LYS F:64 , HOH F:9053BINDING SITE FOR RESIDUE SO4 F 9006
19CC1SOFTWAREPRO G:5 , GLY G:7 , TYR G:9BINDING SITE FOR RESIDUE SO4 G 9007
20CC2SOFTWAREPRO H:5 , GLY H:7 , TYR H:9 , ASP H:61 , LYS H:64 , HOH H:9040BINDING SITE FOR RESIDUE SO4 H 9008
21CC3SOFTWAREPRO I:5 , GLY I:7 , TYR I:9 , LYS I:64BINDING SITE FOR RESIDUE SO4 I 9009
22CC4SOFTWAREPRO J:5 , GLY J:7 , TYR J:9 , LYS J:64 , HOH J:9031BINDING SITE FOR RESIDUE SO4 J 9010
23CC5SOFTWAREPRO K:5 , GLY K:7 , TYR K:9 , LYS K:64BINDING SITE FOR RESIDUE SO4 K 9011
24CC6SOFTWAREPRO L:5 , GLY L:7 , TYR L:9 , LYS L:64BINDING SITE FOR RESIDUE SO4 L 9012
25CC7SOFTWAREHIS A:1 , HIS A:53 , HOH A:9035 , ARG C:47 , LEU C:50BINDING SITE FOR RESIDUE THJ C 7001
26CC8SOFTWAREHIS B:53 , HIS B:54 , HOH B:9015 , ARG E:47 , LEU E:50BINDING SITE FOR RESIDUE THJ B 7002
27CC9SOFTWAREGLU A:17 , ARG A:47 , LEU A:50 , HOH A:9019 , HIS C:53BINDING SITE FOR RESIDUE THJ A 7003
28DC1SOFTWAREHIS D:53 , HOH D:9019 , ARG F:47BINDING SITE FOR RESIDUE THJ D 7004
29DC2SOFTWAREGLU B:17 , ARG B:47 , LEU B:50 , HOH B:9023 , HIS E:53 , HIS E:54 , HOH E:9032BINDING SITE FOR RESIDUE THJ B 7005
30DC3SOFTWAREARG D:47 , LEU D:50 , HIS F:53 , HOH F:9014BINDING SITE FOR RESIDUE THJ D 7006
31DC4SOFTWAREHIS G:53 , HOH G:9021 , HOH G:9049 , GLU I:17 , ARG I:47 , LEU I:50BINDING SITE FOR RESIDUE THJ G 7007
32DC5SOFTWAREHIS H:53 , HOH H:9018 , ARG K:47 , LEU K:50BINDING SITE FOR RESIDUE THJ H 7008
33DC6SOFTWAREARG G:47 , LEU G:50 , HIS I:53 , HIS I:54BINDING SITE FOR RESIDUE THJ I 7009
34DC7SOFTWAREHIS J:53 , HIS J:54 , HOH J:9052 , ARG L:47 , LEU L:50 , HOH L:9029BINDING SITE FOR RESIDUE THJ L 7010
35DC8SOFTWAREARG H:47 , LEU H:50 , HIS K:1 , HIS K:53 , HOH K:9024BINDING SITE FOR RESIDUE THJ H 7011
36DC9SOFTWAREARG J:47 , LEU J:50 , HIS L:53 , HIS L:54 , HOH L:9037BINDING SITE FOR RESIDUE THJ L 7012

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1Q0K)

(-) Cis Peptide Bonds  (12, 12)

Asymmetric Unit
No.Residues
1Leu A:4 -Pro A:5
2Leu B:4 -Pro B:5
3Leu C:4 -Pro C:5
4Leu D:4 -Pro D:5
5Leu E:4 -Pro E:5
6Leu F:4 -Pro F:5
7Leu G:4 -Pro G:5
8Leu H:4 -Pro H:5
9Leu I:4 -Pro I:5
10Leu J:4 -Pro J:5
11Leu K:4 -Pro K:5
12Leu L:4 -Pro L:5

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1Q0K)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1Q0K)

(-) Exons   (0, 0)

(no "Exon" information available for 1Q0K)

(-) 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:117
 aligned with SODN_STRSO | P80734 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:117
                                    24        34        44        54        64        74        84        94       104       114       124       
           SODN_STRSO    15 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 131
               SCOP domains d1q0ka_ A: Nickel-containing superoxide dismutase, NiSOD                                                              SCOP domains
               CATH domains 1q0kA00 A:1-117 Nickel-containing superoxide dismutase, NiSOD                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0k A   1 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 117
                                    10        20        30        40        50        60        70        80        90       100       110       


Chain B from PDB  Type:PROTEIN  Length:117
 aligned with SODN_STRSO | P80734 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:117
                                    24        34        44        54        64        74        84        94       104       114       124       
           SODN_STRSO    15 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 131
               SCOP domains d1q0kb_ B: Nickel-containing superoxide dismutase, NiSOD                                                              SCOP domains
               CATH domains 1q0kB00 B:1-117 Nickel-containing superoxide dismutase, NiSOD                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0k B   1 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 117
                                    10        20        30        40        50        60        70        80        90       100       110       


Chain C from PDB  Type:PROTEIN  Length:117
 aligned with SODN_STRSO | P80734 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:117
                                    24        34        44        54        64        74        84        94       104       114       124       
           SODN_STRSO    15 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 131
               SCOP domains d1q0kc_ C: Nickel-containing superoxide dismutase, NiSOD                                                              SCOP domains
               CATH domains 1q0kC00 C:1-117 Nickel-containing superoxide dismutase, NiSOD                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0k C   1 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 117
                                    10        20        30        40        50        60        70        80        90       100       110       


Chain D from PDB  Type:PROTEIN  Length:117
 aligned with SODN_STRSO | P80734 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:117
                                    24        34        44        54        64        74        84        94       104       114       124       
           SODN_STRSO    15 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 131
               SCOP domains d1q0kd_ D: Nickel-containing superoxide dismutase, NiSOD                                                              SCOP domains
               CATH domains 1q0kD00 D:1-117 Nickel-containing superoxide dismutase, NiSOD                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0k D   1 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 117
                                    10        20        30        40        50        60        70        80        90       100       110       


Chain E from PDB  Type:PROTEIN  Length:117
 aligned with SODN_STRSO | P80734 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:117
                                    24        34        44        54        64        74        84        94       104       114       124       
           SODN_STRSO    15 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 131
               SCOP domains d1q0ke_ E: Nickel-containing superoxide dismutase, NiSOD                                                              SCOP domains
               CATH domains 1q0kE00 E:1-117 Nickel-containing superoxide dismutase, NiSOD                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0k E   1 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 117
                                    10        20        30        40        50        60        70        80        90       100       110       


Chain F from PDB  Type:PROTEIN  Length:117
 aligned with SODN_STRSO | P80734 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:117
                                    24        34        44        54        64        74        84        94       104       114       124       
           SODN_STRSO    15 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 131
               SCOP domains d1q0kf_ F: Nickel-containing superoxide dismutase, NiSOD                                                              SCOP domains
               CATH domains 1q0kF00 F:1-117 Nickel-containing superoxide dismutase, NiSOD                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0k F   1 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 117
                                    10        20        30        40        50        60        70        80        90       100       110       


Chain G from PDB  Type:PROTEIN  Length:117
 aligned with SODN_STRSO | P80734 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:117
                                    24        34        44        54        64        74        84        94       104       114       124       
           SODN_STRSO    15 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 131
               SCOP domains d1q0kg_ G: Nickel-containing superoxide dismutase, NiSOD                                                              SCOP domains
               CATH domains 1q0kG00 G:1-117 Nickel-containing superoxide dismutase, NiSOD                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0k G   1 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 117
                                    10        20        30        40        50        60        70        80        90       100       110       


Chain H from PDB  Type:PROTEIN  Length:117
 aligned with SODN_STRSO | P80734 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:117
                                    24        34        44        54        64        74        84        94       104       114       124       
           SODN_STRSO    15 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 131
               SCOP domains d1q0kh_ H: Nickel-containing superoxide dismutase, NiSOD                                                              SCOP domains
               CATH domains 1q0kH00 H:1-117 Nickel-containing superoxide dismutase, NiSOD                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0k H   1 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 117
                                    10        20        30        40        50        60        70        80        90       100       110       


Chain I from PDB  Type:PROTEIN  Length:117
 aligned with SODN_STRSO | P80734 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:117
                                    24        34        44        54        64        74        84        94       104       114       124       
           SODN_STRSO    15 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 131
               SCOP domains d1q0ki_ I: Nickel-containing superoxide dismutase, NiSOD                                                              SCOP domains
               CATH domains 1q0kI00 I:1-117 Nickel-containing superoxide dismutase, NiSOD                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0k I   1 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 117
                                    10        20        30        40        50        60        70        80        90       100       110       


Chain J from PDB  Type:PROTEIN  Length:117
 aligned with SODN_STRSO | P80734 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:117
                                    24        34        44        54        64        74        84        94       104       114       124       
           SODN_STRSO    15 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 131
               SCOP domains d1q0kj_ J: Nickel-containing superoxide dismutase, NiSOD                                                              SCOP domains
               CATH domains 1q0kJ00 J:1-117 Nickel-containing superoxide dismutase, NiSOD                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0k J   1 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 117
                                    10        20        30        40        50        60        70        80        90       100       110       


Chain K from PDB  Type:PROTEIN  Length:117
 aligned with SODN_STRSO | P80734 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:117
                                    24        34        44        54        64        74        84        94       104       114       124       
           SODN_STRSO    15 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 131
               SCOP domains d1q0kk_ K: Nickel-containing superoxide dismutase, NiSOD                                                              SCOP domains
               CATH domains 1q0kK00 K:1-117 Nickel-containing superoxide dismutase, NiSOD                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0k K   1 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 117
                                    10        20        30        40        50        60        70        80        90       100       110       


Chain L from PDB  Type:PROTEIN  Length:117
 aligned with SODN_STRSO | P80734 from UniProtKB/Swiss-Prot  Length:131

    Alignment length:117
                                    24        34        44        54        64        74        84        94       104       114       124       
           SODN_STRSO    15 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 131
               SCOP domains d1q0kl_ L: Nickel-containing superoxide dismutase, NiSOD                                                              SCOP domains
               CATH domains 1q0kL00 L:1-117 Nickel-containing superoxide dismutase, NiSOD                                                         CATH domains
           Pfam domains (1) Sod_Ni-1q0kL01 L:1-115                                                                                             -- Pfam domains (1)
           Pfam domains (2) Sod_Ni-1q0kL02 L:1-115                                                                                             -- Pfam domains (2)
           Pfam domains (3) Sod_Ni-1q0kL03 L:1-115                                                                                             -- Pfam domains (3)
           Pfam domains (4) Sod_Ni-1q0kL04 L:1-115                                                                                             -- Pfam domains (4)
           Pfam domains (5) Sod_Ni-1q0kL05 L:1-115                                                                                             -- Pfam domains (5)
           Pfam domains (6) Sod_Ni-1q0kL06 L:1-115                                                                                             -- Pfam domains (6)
           Pfam domains (7) Sod_Ni-1q0kL07 L:1-115                                                                                             -- Pfam domains (7)
           Pfam domains (8) Sod_Ni-1q0kL08 L:1-115                                                                                             -- Pfam domains (8)
           Pfam domains (9) Sod_Ni-1q0kL09 L:1-115                                                                                             -- Pfam domains (9)
          Pfam domains (10) Sod_Ni-1q0kL10 L:1-115                                                                                             -- Pfam domains (10)
          Pfam domains (11) Sod_Ni-1q0kL11 L:1-115                                                                                             -- Pfam domains (11)
          Pfam domains (12) Sod_Ni-1q0kL12 L:1-115                                                                                             -- Pfam domains (12)
         Sec.struct. author ..........hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh.hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0k L   1 HCDLPCGVYDPAQARIEAESVKAIQEKMAANDDLHFQIRATVIKEQRAELAKHHLDVLWSDYFKPPHFESYPELHTLVNEAVKALSAAKASTDPATGQKALDYIAQIDKIFWETKKA 117
                                    10        20        30        40        50        60        70        80        90       100       110
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 12)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 12)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 12)

Asymmetric Unit
(-)
Clan: no clan defined [family: Sod_Ni] (8)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F,G,H,I,J,K,L   (SODN_STRSO | P80734)
molecular function
    GO:0016209    antioxidant activity    Inhibition of the reactions brought about by dioxygen (O2) or peroxides. Usually the antioxidant is effective because it can itself be more easily oxidized than the substance protected. The term is often applied to components that can trap free radicals, thereby breaking the chain reaction that normally leads to extensive biological damage.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016151    nickel cation binding    Interacting selectively and non-covalently with nickel (Ni) cations.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0004784    superoxide dismutase activity    Catalysis of the reaction: 2 superoxide + 2 H+ = O2 + hydrogen peroxide.
biological process
    GO:0098869    cellular oxidant detoxification    Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0019430    removal of superoxide radicals    Any process, acting at the cellular level, involved in removing superoxide radicals (O2-) from a cell or organism, e.g. by conversion to dioxygen (O2) and hydrogen peroxide (H2O2).
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    NI  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    SO4  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    THJ  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
    AC8  [ RasMol ]  +environment [ RasMol ]
    AC9  [ RasMol ]  +environment [ RasMol ]
    BC1  [ RasMol ]  +environment [ RasMol ]
    BC2  [ RasMol ]  +environment [ RasMol ]
    BC3  [ RasMol ]  +environment [ RasMol ]
    BC4  [ RasMol ]  +environment [ RasMol ]
    BC5  [ RasMol ]  +environment [ RasMol ]
    BC6  [ RasMol ]  +environment [ RasMol ]
    BC7  [ RasMol ]  +environment [ RasMol ]
    BC8  [ RasMol ]  +environment [ RasMol ]
    BC9  [ RasMol ]  +environment [ RasMol ]
    CC1  [ RasMol ]  +environment [ RasMol ]
    CC2  [ RasMol ]  +environment [ RasMol ]
    CC3  [ RasMol ]  +environment [ RasMol ]
    CC4  [ RasMol ]  +environment [ RasMol ]
    CC5  [ RasMol ]  +environment [ RasMol ]
    CC6  [ RasMol ]  +environment [ RasMol ]
    CC7  [ RasMol ]  +environment [ RasMol ]
    CC8  [ RasMol ]  +environment [ RasMol ]
    CC9  [ RasMol ]  +environment [ RasMol ]
    DC1  [ RasMol ]  +environment [ RasMol ]
    DC2  [ RasMol ]  +environment [ RasMol ]
    DC3  [ RasMol ]  +environment [ RasMol ]
    DC4  [ RasMol ]  +environment [ RasMol ]
    DC5  [ RasMol ]  +environment [ RasMol ]
    DC6  [ RasMol ]  +environment [ RasMol ]
    DC7  [ RasMol ]  +environment [ RasMol ]
    DC8  [ RasMol ]  +environment [ RasMol ]
    DC9  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Leu A:4 - Pro A:5   [ RasMol ]  
    Leu B:4 - Pro B:5   [ RasMol ]  
    Leu C:4 - Pro C:5   [ RasMol ]  
    Leu D:4 - Pro D:5   [ RasMol ]  
    Leu E:4 - Pro E:5   [ RasMol ]  
    Leu F:4 - Pro F:5   [ RasMol ]  
    Leu G:4 - Pro G:5   [ RasMol ]  
    Leu H:4 - Pro H:5   [ RasMol ]  
    Leu I:4 - Pro I:5   [ RasMol ]  
    Leu J:4 - Pro J:5   [ RasMol ]  
    Leu K:4 - Pro K:5   [ RasMol ]  
    Leu L:4 - Pro L:5   [ RasMol ]  
 
Biological Units
  Complete Structure
    Biological Unit 1  [ Jena3D ]
    Biological Unit 2  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Asym. Unit - sites PNG format | Biol. Unit 1 PNG format | Biol. Unit 1 - sites PNG format | Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  1q0k
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  SODN_STRSO | P80734
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  1.15.1.1
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  SODN_STRSO | P80734
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        SODN_STRSO | P80734: 1q0d 1q0f 1q0g 1q0m

(-) Related Entries Specified in the PDB File

1q0d CONTAINS THE RESTING ENZYME IN THE SAME CRYSTAL FORM
1q0f CONTAINS THE PARTIALLY X-RAY REDUCED ENZYME IN THE SAME CRYSTAL FORM
1q0g CONTAINS THE FULLY X-RAY REDUCED ENZYME IN THE SAME CRYSTAL FORM
1q0m CONTAINS THE FULLY X-RAY REDUCED ENZYME IN ANOTHER CRYSTAL FORM