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(-) Description

Title :  CRYSTAL STRUCTURE OF METHANOL DEHYDROGENASE FROM HYPHOMICROBIUM DENITRIFICANS
 
Authors :  M. Nojiri, D. Hira, K. Yamaguchi, S. Suzuki
Date :  09 Aug 05  (Deposition) - 09 Aug 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.49
Chains :  Asym. Unit :  A,B,D,E,I,J
Biol. Unit 1:  A,B  (2x)
Biol. Unit 2:  D,E,I,J  (1x)
Keywords :  Electron Transfer, Oxidoreductase, Calcium Binding, Methanol, Pqq (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Nojiri, D. Hira, K. Yamaguchi, T. Okajima, K. Tanizawa, S. Suzuki
Crystal Structures Of Cytochrome C(L) And Methanol Dehydrogenase From Hyphomicrobium Denitrificans: Structural And Mechanistic Insights Into Interactions Between The Two Proteins
Biochemistry V. 45 3481 2006
PubMed-ID: 16533029  |  Reference-DOI: 10.1021/BI051877J
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - METHANOL DEHYDROGENASE LARGE SUBUNIT
    Chains: A, D, I
    EC Number: 1.1.99.8
    Organism Scientific: HYPHOMICROBIUM DENITRIFICANS
    Organism Taxid: 53399
    Strain: A3151
 
Molecule 2 - METHANOL DEHYDROGENASE SMALL SUBUNIT
    Chains: B, E, J
    EC Number: 1.1.99.8
    Organism Scientific: HYPHOMICROBIUM DENITRIFICANS
    Organism Taxid: 53399
    Strain: A3151

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABDEIJ
Biological Unit 1 (2x): AB    
Biological Unit 2 (1x):   DEIJ

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1CA3Ligand/IonCALCIUM ION
2PQQ3Ligand/IonPYRROLOQUINOLINE QUINONE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2PQQ2Ligand/IonPYRROLOQUINOLINE QUINONE
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2PQQ2Ligand/IonPYRROLOQUINOLINE QUINONE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:177 , ASN A:261 , ASP A:303 , PQQ A:601BINDING SITE FOR RESIDUE CA A 775
2AC2SOFTWAREGLU D:177 , ASN D:261 , ASP D:303 , PQQ D:601BINDING SITE FOR RESIDUE CA D 775
3AC3SOFTWAREGLU I:177 , ASN I:261 , PQQ I:601BINDING SITE FOR RESIDUE CA I 775
4AC4SOFTWAREGLU A:55 , ARG A:109 , THR A:159 , SER A:174 , GLY A:175 , ALA A:176 , GLU A:177 , THR A:241 , TRP A:243 , ASP A:303 , ARG A:331 , ASN A:394 , GLN A:395 , TRP A:476 , GLY A:539 , TRP A:540 , PRO A:541 , CA A:775 , HOH A:810BINDING SITE FOR RESIDUE PQQ A 601
5AC5SOFTWAREGLU D:55 , ARG D:109 , THR D:159 , SER D:174 , GLY D:175 , ALA D:176 , GLU D:177 , THR D:241 , TRP D:243 , ASN D:261 , ASP D:303 , ARG D:331 , ASN D:394 , GLN D:395 , TRP D:476 , GLY D:539 , TRP D:540 , PRO D:541 , CA D:775 , HOH D:788BINDING SITE FOR RESIDUE PQQ D 601
6AC6SOFTWAREGLU I:55 , CYS I:104 , ARG I:109 , THR I:159 , SER I:174 , GLY I:175 , ALA I:176 , GLU I:177 , THR I:241 , TRP I:243 , ASP I:303 , ARG I:331 , ASN I:394 , GLN I:395 , TRP I:476 , GLY I:539 , TRP I:540 , CA I:775 , HOH I:926BINDING SITE FOR RESIDUE PQQ I 601

(-) SS Bonds  (9, 9)

Asymmetric Unit
No.Residues
1A:103 -A:104
2A:386 -A:415
3B:6 -B:12
4D:103 -D:104
5D:386 -D:415
6E:6 -E:12
7I:103 -I:104
8I:386 -I:415
9J:6 -J:12

(-) Cis Peptide Bonds  (9, 9)

Asymmetric Unit
No.Residues
1Phe A:71 -Pro A:72
2Ala A:263 -Pro A:264
3Cys A:386 -Pro A:387
4Phe D:71 -Pro D:72
5Ala D:263 -Pro D:264
6Cys D:386 -Pro D:387
7Phe I:71 -Pro I:72
8Ala I:263 -Pro I:264
9Cys I:386 -Pro I:387

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2D0V)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2D0V)

(-) Exons   (0, 0)

(no "Exon" information available for 2D0V)

(-) 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:597
 aligned with Q4AE26_9RHIZ | Q4AE26 from UniProtKB/TrEMBL  Length:597

    Alignment length:597
                                    10        20        30        40        50        60        70        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       
         Q4AE26_9RHIZ     1 NDKLIELSNSNENWVMPGKNYDSNNYSTSTQINVDNVKQLKHAWSFSTGELHGHEGAPLVIGDVMYVHSSFPNKTFALDLNDPGHILWQHSPKQDPAARSVACCDLVNRGLAYWPGDDKTPSLIIKTQLDGHLVALNAKTGEEFWKVENGDIKVGQTLTQAPYVVHDLAIVGSSGAELGVRGHVTAYNVRTGEQAWRYYATGPDAEIGLADDFNSANPHYGQKGLGTATWEGDAWKIGGGTNWGWYAYDPAANLIYYGSGNPAPWNETMRPGDNKWTMTITARDADTGKMKFGYQKTPHDEWDFAGVNVIMLSEQTDKTGKKRKLLTHPDRNGIVYTLDRENGDLISADKLDDTVNVFKTVDLKTGLPVRDPEYGTRMDHKGTDICPSAMGYHNQGHDSYDPQKQLFFMGINHICMDWEPFMLPYRAGQFFVGATLWMYPGPKGDRQNYLGLGQIKAYNAITNEYKWQHMERFSVWGGTLATAGNLVFYGTLDGFLKARNSDTGELVWKHKLPSGVIGYPMTYEHKGVQYIAVMSGVGGWPGVGLVFDLQDPTAGLGAVGAFKNLQNYTQMGGSLEVFSLDGKNPYDDVNVGEYEKG 597
               SCOP domains d2d0va_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains 2d0vA00 A:1-597  [code=2.140.10.10, no name defined]                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhh................ee........hhh.eeeeeeee...........eee..eeeee......eeeee..eeeeeeeee....hhhhhhhh.........eee........eeeee....eeeeee.....eeeeee..hhhhh.......eee..eeee...hhhhh...eeeeee.....eeeeee...hhhhhh........hhhhh..hhhhhh.hhhhhhhh........eee....eeeee.......hhhhh........eeeeee.....eeeeee...............eeeeee.....eeeeeeee....eeeeee.....eeeeee.......eeee......eee.hhhh......eeee.............eee....eeeeeee.eeeeeee.............eeeeeee............eeeeee......eeeeeee........eee...eeeee....eeeeee.....eeeeee.........eeeee..eeeeeeee...hhhhhhhhhh.....hhhhhhhhh.hhhhh.....eeeeeee.hhhhhhh......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2d0v A   1 NDKLIELSNSNENWVMPGKNYDSNNYSTSTQINVDNVKQLKHAWSFSTGELHGHEGAPLVIGDVMYVHSSFPNKTFALDLNDPGHILWQHSPKQDPAARSVACCDLVNRGLAYWPGDDKTPSLIIKTQLDGHLVALNAKTGEEFWKVENGDIKVGQTLTQAPYVVHDLAIVGSSGAELGVRGHVTAYNVRTGEQAWRYYATGPDAEIGLADDFNSANPHYGQKGLGTATWEGDAWKIGGGTNWGWYAYDPAANLIYYGSGNPAPWNETMRPGDNKWTMTITARDADTGKMKFGYQKTPHDEWDFAGVNVIMLSEQTDKTGKKRKLLTHPDRNGIVYTLDRENGDLISADKLDDTVNVFKTVDLKTGLPVRDPEYGTRMDHKGTDICPSAMGYHNQGHDSYDPQKQLFFMGINHICMDWEPFMLPYRAGQFFVGATLWMYPGPKGDRQNYLGLGQIKAYNAITNEYKWQHMERFSVWGGTLATAGNLVFYGTLDGFLKARNSDTGELVWKHKLPSGVIGYPMTYEHKGVQYIAVMSGVGGWPGVGLVFDLQDPTAGLGAVGAFKNLQNYTQMGGSLEVFSLDGKNPYDDVNVGEYEKG 597
                                    10        20        30        40        50        60        70        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       


Chain B from PDB  Type:PROTEIN  Length:70
 aligned with Q4AE23_9RHIZ | Q4AE23 from UniProtKB/TrEMBL  Length:101

    Alignment length:70
                                    39        49        59        69        79        89        99
         Q4AE23_9RHIZ    30 YDGTHCKAPGNCWEPKPGFPEKIAGSKYDPKHDPKELNKQVESRKGEEERNANRAEHFKKTGKWVYDVKK  99
               SCOP domains d2d0vb_ B: automated matches                                           SCOP domains
               CATH domains 2d0vB00 B:1-70 Methanol Dehydrogenase, chain B                         CATH domains
               Pfam domains ---------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------- Transcript
                 2d0v B   1 YDGTHCKAPGNCWEPKPGFPEKIAGSKYDPKHDPKELNKQVESRKGEEERNANRAEHFKKTGKWVYDVKK  70
                                    10        20        30        40        50        60        70


Chain D from PDB  Type:PROTEIN  Length:597
 aligned with Q4AE26_9RHIZ | Q4AE26 from UniProtKB/TrEMBL  Length:597

    Alignment length:597
                                    10        20        30        40        50        60        70        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       
         Q4AE26_9RHIZ     1 NDKLIELSNSNENWVMPGKNYDSNNYSTSTQINVDNVKQLKHAWSFSTGELHGHEGAPLVIGDVMYVHSSFPNKTFALDLNDPGHILWQHSPKQDPAARSVACCDLVNRGLAYWPGDDKTPSLIIKTQLDGHLVALNAKTGEEFWKVENGDIKVGQTLTQAPYVVHDLAIVGSSGAELGVRGHVTAYNVRTGEQAWRYYATGPDAEIGLADDFNSANPHYGQKGLGTATWEGDAWKIGGGTNWGWYAYDPAANLIYYGSGNPAPWNETMRPGDNKWTMTITARDADTGKMKFGYQKTPHDEWDFAGVNVIMLSEQTDKTGKKRKLLTHPDRNGIVYTLDRENGDLISADKLDDTVNVFKTVDLKTGLPVRDPEYGTRMDHKGTDICPSAMGYHNQGHDSYDPQKQLFFMGINHICMDWEPFMLPYRAGQFFVGATLWMYPGPKGDRQNYLGLGQIKAYNAITNEYKWQHMERFSVWGGTLATAGNLVFYGTLDGFLKARNSDTGELVWKHKLPSGVIGYPMTYEHKGVQYIAVMSGVGGWPGVGLVFDLQDPTAGLGAVGAFKNLQNYTQMGGSLEVFSLDGKNPYDDVNVGEYEKG 597
               SCOP domains d2d0vd_ D: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          SCOP domains
               CATH domains 2d0vD00 D:1-597  [code=2.140.10.10, no name defined]                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhh................ee........hhh.eeeeeeee.......ee..eee..eeeee......eeeee......eeeee....hhhhhhhh.........eee........eeeee....eeeeee.....eeeeee..hhhhh.......eee..eeee...hhhhh...eeeeee.....eeeeee...hhhhhh........hhhhh..hhhhhh...hhhhhh........eee....eeeee.......hhhhh........eeeeee.....eeeeee...............eeeeee.....eeeeeeee....eeeeee.....eeeeee.......eeee......eee.hhhh......eeee.............eee....eeeeeee.eeeeeee.............eeeeeee............eeeeeee....eeeeeeee.......eeee...eeeee....eeeeee.....eeeeee.....ee..eeeee..eeeeeeee......hhhhhhh.....hhhhhhhhh.hhhhh.....eeeeeee.hhhhhhh......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2d0v D   1 NDKLIELSNSNENWVMPGKNYDSNNYSTSTQINVDNVKQLKHAWSFSTGELHGHEGAPLVIGDVMYVHSSFPNKTFALDLNDPGHILWQHSPKQDPAARSVACCDLVNRGLAYWPGDDKTPSLIIKTQLDGHLVALNAKTGEEFWKVENGDIKVGQTLTQAPYVVHDLAIVGSSGAELGVRGHVTAYNVRTGEQAWRYYATGPDAEIGLADDFNSANPHYGQKGLGTATWEGDAWKIGGGTNWGWYAYDPAANLIYYGSGNPAPWNETMRPGDNKWTMTITARDADTGKMKFGYQKTPHDEWDFAGVNVIMLSEQTDKTGKKRKLLTHPDRNGIVYTLDRENGDLISADKLDDTVNVFKTVDLKTGLPVRDPEYGTRMDHKGTDICPSAMGYHNQGHDSYDPQKQLFFMGINHICMDWEPFMLPYRAGQFFVGATLWMYPGPKGDRQNYLGLGQIKAYNAITNEYKWQHMERFSVWGGTLATAGNLVFYGTLDGFLKARNSDTGELVWKHKLPSGVIGYPMTYEHKGVQYIAVMSGVGGWPGVGLVFDLQDPTAGLGAVGAFKNLQNYTQMGGSLEVFSLDGKNPYDDVNVGEYEKG 597
                                    10        20        30        40        50        60        70        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       


Chain E from PDB  Type:PROTEIN  Length:68
 aligned with Q4AE23_9RHIZ | Q4AE23 from UniProtKB/TrEMBL  Length:101

    Alignment length:68
                                    39        49        59        69        79        89        
         Q4AE23_9RHIZ    30 YDGTHCKAPGNCWEPKPGFPEKIAGSKYDPKHDPKELNKQVESRKGEEERNANRAEHFKKTGKWVYDV  97
               SCOP domains d2d0ve_ E: automated matches                                         SCOP domains
               CATH domains 2d0vE00 E:1-68 Methanol Dehydrogenase, chain B                       CATH domains
               Pfam domains -------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------- Transcript
                 2d0v E   1 YDGTHCKAPGNCWEPKPGFPEKIAGSKYDPKHDPKELNKQVESRKGEEERNANRAEHFKKTGKWVYDV  68
                                    10        20        30        40        50        60        


Chain I from PDB  Type:PROTEIN  Length:595
 aligned with Q4AE26_9RHIZ | Q4AE26 from UniProtKB/TrEMBL  Length:597

    Alignment length:595
                                    10        20        30        40        50        60        70        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     
         Q4AE26_9RHIZ     1 NDKLIELSNSNENWVMPGKNYDSNNYSTSTQINVDNVKQLKHAWSFSTGELHGHEGAPLVIGDVMYVHSSFPNKTFALDLNDPGHILWQHSPKQDPAARSVACCDLVNRGLAYWPGDDKTPSLIIKTQLDGHLVALNAKTGEEFWKVENGDIKVGQTLTQAPYVVHDLAIVGSSGAELGVRGHVTAYNVRTGEQAWRYYATGPDAEIGLADDFNSANPHYGQKGLGTATWEGDAWKIGGGTNWGWYAYDPAANLIYYGSGNPAPWNETMRPGDNKWTMTITARDADTGKMKFGYQKTPHDEWDFAGVNVIMLSEQTDKTGKKRKLLTHPDRNGIVYTLDRENGDLISADKLDDTVNVFKTVDLKTGLPVRDPEYGTRMDHKGTDICPSAMGYHNQGHDSYDPQKQLFFMGINHICMDWEPFMLPYRAGQFFVGATLWMYPGPKGDRQNYLGLGQIKAYNAITNEYKWQHMERFSVWGGTLATAGNLVFYGTLDGFLKARNSDTGELVWKHKLPSGVIGYPMTYEHKGVQYIAVMSGVGGWPGVGLVFDLQDPTAGLGAVGAFKNLQNYTQMGGSLEVFSLDGKNPYDDVNVGEYE 595
               SCOP domains d2d0vi_ I: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains 2d0vI00 I:1-595  [code=2.140.10.10, no name defined]                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh.................ee........hhh.eeeeeeee...........eee..eeeee......eeeee......eeeee......hhhhhh.........eee........eeeee....eeeeee.....eeeeee..hhhhh.......eee..eeee...hhhhh...eeeeee.....eeeeee...hhhhhh........hhhhh..hhhhhh...hhhhhh........eee....eeeee.......hhhhh........eeeeee.....eeeeee...............eeeeee.....eeeeeeee....eeeeee.....eeeeee.......eeee......eee.hhhh......eeee.............eee....eeeeeee.eeeeeee.............eeeeeee............eeeeeee....eeeeeeee........eee...eeeee....eeeeee.....eeeeee.........eeeee..eeeeeeee...hhhhhhhhh......hhhhhhhhh.hhhhh.....eeeeeee.hhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2d0v I   1 NDKLIELSNSNENWVMPGKNYDSNNYSTSTQINVDNVKQLKHAWSFSTGELHGHEGAPLVIGDVMYVHSSFPNKTFALDLNDPGHILWQHSPKQDPAARSVACCDLVNRGLAYWPGDDKTPSLIIKTQLDGHLVALNAKTGEEFWKVENGDIKVGQTLTQAPYVVHDLAIVGSSGAELGVRGHVTAYNVRTGEQAWRYYATGPDAEIGLADDFNSANPHYGQKGLGTATWEGDAWKIGGGTNWGWYAYDPAANLIYYGSGNPAPWNETMRPGDNKWTMTITARDADTGKMKFGYQKTPHDEWDFAGVNVIMLSEQTDKTGKKRKLLTHPDRNGIVYTLDRENGDLISADKLDDTVNVFKTVDLKTGLPVRDPEYGTRMDHKGTDICPSAMGYHNQGHDSYDPQKQLFFMGINHICMDWEPFMLPYRAGQFFVGATLWMYPGPKGDRQNYLGLGQIKAYNAITNEYKWQHMERFSVWGGTLATAGNLVFYGTLDGFLKARNSDTGELVWKHKLPSGVIGYPMTYEHKGVQYIAVMSGVGGWPGVGLVFDLQDPTAGLGAVGAFKNLQNYTQMGGSLEVFSLDGKNPYDDVNVGEYE 595
                                    10        20        30        40        50        60        70        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     


Chain J from PDB  Type:PROTEIN  Length:70
 aligned with Q4AE23_9RHIZ | Q4AE23 from UniProtKB/TrEMBL  Length:101

    Alignment length:70
                                    39        49        59        69        79        89        99
         Q4AE23_9RHIZ    30 YDGTHCKAPGNCWEPKPGFPEKIAGSKYDPKHDPKELNKQVESRKGEEERNANRAEHFKKTGKWVYDVKK  99
               SCOP domains d2d0vj_ J: automated matches                                           SCOP domains
               CATH domains 2d0vJ00 J:1-70 Methanol Dehydrogenase, chain B                         CATH domains
               Pfam domains ---------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------- Transcript
                 2d0v J   1 YDGTHCKAPGNCWEPKPGFPEKIAGSKYDPKHDPKELNKQVESRKGEEERNANRAEHFKKTGKWVYDVKK  70
                                    10        20        30        40        50        60        70
   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  (2, 6)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (2, 6)

Asymmetric Unit
(-)
Class: Few Secondary Structures (1120)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2D0V)

(-) Gene Ontology  (14, 15)

Asymmetric Unit(hide GO term definitions)
Chain A,D,I   (Q4AE26_9RHIZ | Q4AE26)
molecular function
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016614    oxidoreductase activity, acting on CH-OH group of donors    Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group act as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
biological process
    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.
cellular component
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0030288    outer membrane-bounded periplasmic space    The region between the inner (cytoplasmic or plasma) membrane and outer membrane of organisms with two membranes such as Gram negative bacteria. These periplasmic spaces are relatively thick and contain a thin peptidoglycan layer (PGL), also referred to as a thin cell wall.

Chain B,E,J   (Q4AE23_9RHIZ | Q4AE23)
molecular function
    GO:0052932    2-chloroethanol cytochrome-c oxidoreductase activity    Catalysis of the reaction: 2-chloroethanol + 2 cytochrome c(L) = chloroacetaldehyde + 2 reduced cytochrome c(L).
    GO:0004022    alcohol dehydrogenase (NAD) activity    Catalysis of the reaction: an alcohol + NAD+ = an aldehyde or ketone + NADH + H+.
    GO:0052933    alcohol dehydrogenase (cytochrome c(L)) activity    Catalysis of the reaction: primary alcohol + 2 cytochrome c(L) = 2 reduced cytochrome c(L) + an aldehyde + 2 H+.
    GO:0052931    ethanol cytochrome-c oxidoreductase activity    Catalysis of the reaction: ethanol + 2 cytochrome c(L) = acetaldehyde + 2 reduced cytochrome c(L) + 2 H+.
    GO:0052930    methanol ferricytochrome-c oxidoreductase activity    Catalysis of the reaction: methanol + 2 ferricytochrome c = formaldehyde + 2 ferrocytochrome c + 2 H+.
    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.
biological process
    GO:0015945    methanol metabolic process    The chemical reactions and pathways involving methanol, CH3-OH, a colorless, flammable, mobile, poisonous liquid, widely used as a solvent.
    GO:0015946    methanol oxidation    The chemical reactions and pathways resulting in the conversion of methanol to methyl-Coenzyme M.
    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.

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2d0w CYTOCHROME CL FROM HYPHOMICROBIUM DENITRIFICANS