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(-) Description

Title :  CRYSTAL STRUCTURE OF SPERMIDINE SYNTHASE FROM E. COLI
 
Authors :  X. Zhou, K. L. Tkaczuk, M. Chruszcz, T. K. Chua, W. Minor, J. Sivaraman
Date :  27 Jul 10  (Deposition) - 18 Aug 10  (Release) - 18 Aug 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.90
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Biol. Unit 4:  G,H  (1x)
Keywords :  Aminopropyltransferase, Polyamine Synthase, Rossmann Fold, Polyamine Biosynthesis, Spermidine Biosynthesis, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Zhou, T. K. Chua, K. L. Tkaczuk, J. M. Bujnicki, J. Sivaraman
The Crystal Structure Of Escherichia Coli Spermidine Synthase Spee Reveals A Unique Substrate-Binding Pocket
J. Struct. Biol. V. 169 277 2010
PubMed-ID: 20051267  |  Reference-DOI: 10.1016/J.JSB.2009.12.024

(-) Compounds

Molecule 1 - SPERMIDINE SYNTHASE
    Chains: A, B, C, D, E, F, G, H
    EC Number: 2.5.1.16
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PCA24N
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: SPEE
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K-12
    Synonym: SPEE, PUTRESCINE AMINOPROPYLTRANSFERASE, PAPT, SPDSY

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): AB      
Biological Unit 2 (1x):   CD    
Biological Unit 3 (1x):     EF  
Biological Unit 4 (1x):       GH

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 31)

Asymmetric Unit (1, 31)
No.NameCountTypeFull Name
1SO431Ligand/IonSULFATE ION
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION
Biological Unit 2 (1, 10)
No.NameCountTypeFull Name
1SO410Ligand/IonSULFATE ION
Biological Unit 3 (1, 8)
No.NameCountTypeFull Name
1SO48Ligand/IonSULFATE ION
Biological Unit 4 (1, 7)
No.NameCountTypeFull Name
1SO47Ligand/IonSULFATE ION

(-) Sites  (30, 30)

Asymmetric Unit (30, 30)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:243BINDING SITE FOR RESIDUE SO4 A 289
02AC2SOFTWAREARG A:97 , ARG A:262BINDING SITE FOR RESIDUE SO4 A 290
03AC3SOFTWAREASN A:265 , PRO A:266 , ALA A:267BINDING SITE FOR RESIDUE SO4 A 291
04AC4SOFTWAREHIS A:12 , ASP A:13 , GLN A:14 , SER E:168 , LEU E:169 , PHE E:170 , THR E:171BINDING SITE FOR RESIDUE SO4 A 292
05AC5SOFTWAREARG B:97 , ARG B:262BINDING SITE FOR RESIDUE SO4 B 289
06AC6SOFTWAREARG C:243BINDING SITE FOR RESIDUE SO4 C 289
07AC7SOFTWAREARG C:97BINDING SITE FOR RESIDUE SO4 C 290
08AC8SOFTWARESER C:168 , LEU C:169 , PHE C:170 , THR C:171 , HIS G:12 , ASP G:13 , GLN G:14BINDING SITE FOR RESIDUE SO4 C 291
09AC9SOFTWARETHR B:171 , LYS C:135BINDING SITE FOR RESIDUE SO4 C 292
10BC1SOFTWAREGLN C:191 , TYR C:226BINDING SITE FOR RESIDUE SO4 C 293
11BC2SOFTWAREHIS C:12 , ASP C:13 , GLN C:14 , SER G:168 , LEU G:169 , PHE G:170 , THR G:171BINDING SITE FOR RESIDUE SO4 C 294
12BC3SOFTWAREARG D:243BINDING SITE FOR RESIDUE SO4 D 289
13BC4SOFTWAREARG D:97 , ARG D:262BINDING SITE FOR RESIDUE SO4 D 290
14BC5SOFTWAREASN D:23 , VAL D:24BINDING SITE FOR RESIDUE SO4 D 291
15BC6SOFTWAREGLN D:147BINDING SITE FOR RESIDUE SO4 D 292
16BC7SOFTWAREARG E:243BINDING SITE FOR RESIDUE SO4 E 289
17BC8SOFTWARESER A:168 , LEU A:169 , PHE A:170 , THR A:171 , HIS E:12 , ASP E:13 , GLN E:14BINDING SITE FOR RESIDUE SO4 E 290
18BC9SOFTWAREARG E:97 , ARG E:262BINDING SITE FOR RESIDUE SO4 E 291
19CC1SOFTWAREPRO E:184 , ASP E:238 , ASN E:239BINDING SITE FOR RESIDUE SO4 E 292
20CC2SOFTWAREARG F:243BINDING SITE FOR RESIDUE SO4 F 289
21CC3SOFTWAREARG F:262BINDING SITE FOR RESIDUE SO4 F 290
22CC4SOFTWAREARG F:207BINDING SITE FOR RESIDUE SO4 F 291
23CC5SOFTWAREGLN F:191BINDING SITE FOR RESIDUE SO4 F 292
24CC6SOFTWAREARG G:243BINDING SITE FOR RESIDUE SO4 G 289
25CC7SOFTWARELEU G:11 , GLY G:193 , VAL G:194 , SO4 G:291BINDING SITE FOR RESIDUE SO4 G 290
26CC8SOFTWAREVAL G:53 , TYR G:226 , SO4 G:290BINDING SITE FOR RESIDUE SO4 G 291
27CC9SOFTWAREPRO G:184 , GLY G:185 , ASP G:238 , ASN G:239BINDING SITE FOR RESIDUE SO4 G 292
28DC1SOFTWAREARG G:97 , ARG G:262BINDING SITE FOR RESIDUE SO4 G 293
29DC2SOFTWAREARG H:97 , ARG H:262BINDING SITE FOR RESIDUE SO4 H 289
30DC3SOFTWAREARG H:243BINDING SITE FOR RESIDUE SO4 H 290

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3O4F)

(-) Cis Peptide Bonds  (9, 9)

Asymmetric Unit
No.Residues
1Ala A:256 -Ser A:257
2Ala B:256 -Ser B:257
3Ala C:256 -Ser C:257
4Ala D:256 -Ser D:257
5Asp E:31 -His E:32
6Ala E:256 -Ser E:257
7Ala F:256 -Ser F:257
8Ala G:256 -Ser G:257
9Ala H:256 -Ser H:257

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3O4F)

(-) PROSITE Motifs  (2, 16)

Asymmetric Unit (2, 16)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PABS_2PS51006 Polyamine biosynthesis (PABS) domain profile.SPEE_ECOLI9-238
 
 
 
 
 
 
 		  8A:9-238
B:9-238
C:9-238
D:9-238
E:9-238
F:9-238
G:9-238
H:9-238
2PABS_1PS01330 Polyamine biosynthesis (PABS) domain signature.SPEE_ECOLI81-94
 
 
 
 
 
 
 		  8A:81-94
B:81-94
C:81-94
D:81-94
E:81-94
F:81-94
G:81-94
H:81-94
Biological Unit 1 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PABS_2PS51006 Polyamine biosynthesis (PABS) domain profile.SPEE_ECOLI9-238
 
 
 
 
 
 
 		  2A:9-238
B:9-238
-
-
-
-
-
-
2PABS_1PS01330 Polyamine biosynthesis (PABS) domain signature.SPEE_ECOLI81-94
 
 
 
 
 
 
 		  2A:81-94
B:81-94
-
-
-
-
-
-
Biological Unit 2 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PABS_2PS51006 Polyamine biosynthesis (PABS) domain profile.SPEE_ECOLI9-238
 
 
 
 
 
 
 		  2-
-
C:9-238
D:9-238
-
-
-
-
2PABS_1PS01330 Polyamine biosynthesis (PABS) domain signature.SPEE_ECOLI81-94
 
 
 
 
 
 
 		  2-
-
C:81-94
D:81-94
-
-
-
-
Biological Unit 3 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PABS_2PS51006 Polyamine biosynthesis (PABS) domain profile.SPEE_ECOLI9-238
 
 
 
 
 
 
 		  2-
-
-
-
E:9-238
F:9-238
-
-
2PABS_1PS01330 Polyamine biosynthesis (PABS) domain signature.SPEE_ECOLI81-94
 
 
 
 
 
 
 		  2-
-
-
-
E:81-94
F:81-94
-
-
Biological Unit 4 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PABS_2PS51006 Polyamine biosynthesis (PABS) domain profile.SPEE_ECOLI9-238
 
 
 
 
 
 
 		  2-
-
-
-
-
-
G:9-238
H:9-238
2PABS_1PS01330 Polyamine biosynthesis (PABS) domain signature.SPEE_ECOLI81-94
 
 
 
 
 
 
 		  2-
-
-
-
-
-
G:81-94
H:81-94

(-) Exons   (0, 0)

(no "Exon" information available for 3O4F)

(-) 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:282
 aligned with SPEE_ECOLI | P09158 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:285
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283     
           SPEE_ECOLI     4 KKQWHETLHDQFGQYFAVDNVLYHEKTDHQDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTDPIGPGESLFTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALASQPS 288
               SCOP domains d3o4fa_ A: automated match   es                                                                                                                                                                                                                                                               SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee......eeeeeee.eeeeee.---..eeeeee...eeeeee..eeeee..hhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhhhhhh..eeeee.............eeeeee..............hhhhhhhhhheeeeeeeeeeeee....hhhhhhhhhhhhhhh.eeeeeee.........eeeeeee...hhhhhhhhhhhhhhhh........hhhhhhhhh..hhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -----PABS_2  PDB: A:9-238 UniProt: 9-238                                                                                                                                                                                                   -------------------------------------------------- PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------PABS_1        -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3o4f A   4 KKQWHETLHDQFGQYFAVDNVLYHEK---QDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTDPIGPGESLFTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALASQPS 288
                                    13        23     |  33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283     
                                                    29  33                                                                                                                                                                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:270
 aligned with SPEE_ECOLI | P09158 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:280
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284
           SPEE_ECOLI     5 KQWHETLHDQFGQYFAVDNVLYHEKTDHQDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTDPIGPGESLFTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALA 284
               SCOP domains d3o4fb_ B: automated matches                                                                                                                                                                                                                                                             SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee......eeeeee..eeeeeeee...eeeeeee...eeeeee..eeeee..hhhhhhhhhhhhhhhhh....eeeeee...hhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhhhhhh..eeeee..hhhhhh.....eeeeeee.----------.hhhhhhhhhhheeeeeeeeeeeee....hhhhhhhhhhhhhhh.eeeeeee.........eeeeeee........hhhhhhhhhhh........hhhhhhhhh..hhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----PABS_2  PDB: B:9-238 UniProt: 9-238                                                                                                                                                                                                   ---------------------------------------------- PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------PABS_1        ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3o4f B   5 KQWHETLHDQFGQYFAVDNVLYHEKTDHQDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDC----------FTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALA 284
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154    |    -     | 174       184       194       204       214       224       234       244       254       264       274       284
                                                                                                                                                                                    159        170                                                                                                                  


Chain C from PDB  Type:PROTEIN  Length:284
 aligned with SPEE_ECOLI | P09158 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:284
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283    
           SPEE_ECOLI     4 KKQWHETLHDQFGQYFAVDNVLYHEKTDHQDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTDPIGPGESLFTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALASQP 287
               SCOP domains d3o4fc_ C: automated matches                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee......eeeeee..eeeeeee....eeeeeee...eeeeee..eeeee..hhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhhhhhh..eeeee.............eeeeee..............hhhhhhhhhheeeeeeeeeeeee....hhhhhhhhhhhhhhh.eeeeeee.........eeeeeee........hhhhhhhhhhh........hhhhhhhhh..hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -----PABS_2  PDB: C:9-238 UniProt: 9-238                                                                                                                                                                                                   ------------------------------------------------- PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------PABS_1        ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3o4f C   4 KKQWHETLHDQFGQYFAVDNVLYHEKTDHQDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTDPIGPGESLFTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALASQP 287
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283    


Chain D from PDB  Type:PROTEIN  Length:276
 aligned with SPEE_ECOLI | P09158 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:281
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283 
           SPEE_ECOLI     4 KKQWHETLHDQFGQYFAVDNVLYHEKTDHQDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTDPIGPGESLFTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALA 284
               SCOP domains d3o4fd_ D: automated matches                                                                                                                                                                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee......eeeeeee.eeeeeeee...eeeeeee...eeeeee..eeeee..hhhhhhhhhhhhhhhhh....eeeeee...hhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhhhhhh..eeeee.............eeeeeee...-----hhhhhhhhhhhhhhheeeeeeeeeeeee....hhhhhhhhhhhhhhh.eeeeeee.........eeeeeee........hhhhhhhhhhh........hhhhhhhhh..hhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -----PABS_2  PDB: D:9-238 UniProt: 9-238                                                                                                                                                                                                   ---------------------------------------------- PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------PABS_1        ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3o4f D   4 KKQWHETLHDQFGQYFAVDNVLYHEKTDHQDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTD-----ESLFTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALA 284
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       | -   |   173       183       193       203       213       223       233       243       253       263       273       283 
                                                                                                                                                                                       161   167                                                                                                                     


Chain E from PDB  Type:PROTEIN  Length:283
 aligned with SPEE_ECOLI | P09158 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:283
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284   
           SPEE_ECOLI     5 KQWHETLHDQFGQYFAVDNVLYHEKTDHQDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTDPIGPGESLFTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALASQP 287
               SCOP domains d3o4fe_ E: automated matches                                                                                                                                                                                                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee......eeeeee..eeeeee......eeeeee...eeeeee..eeeee..hhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhhhhhh..eeeee.............eeeeee..............hhhhhhhhhheeeeeeeeeeeee....hhhhhhhhhhhhhhh.eeeeeee.........eeeeeee...hhhhhhhhhhhhhhhh........hhhhhhhhh..hhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----PABS_2  PDB: E:9-238 UniProt: 9-238                                                                                                                                                                                                   ------------------------------------------------- PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------PABS_1        ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3o4f E   5 KQWHETLHDQFGQYFAVDNVLYHEKTDHQDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTDPIGPGESLFTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALASQP 287
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284   


Chain F from PDB  Type:PROTEIN  Length:269
 aligned with SPEE_ECOLI | P09158 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:282
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284  
           SPEE_ECOLI     5 KQWHETLHDQFGQYFAVDNVLYHEKTDHQDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTDPIGPGESLFTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALASQ 286
               SCOP domains d3o4ff_ F: automated mat    ches                                                                                                                                                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eee......eeeeee..eeeeee----..eeeeee...eeeeee..eeeee..hhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhhhhhh..eeeee.............eeeeee....---------hhhhhhhhhhheeeeeeeeeeeee....hhhhhhhhhhhhhhh.eeeeeee.........eeeeeee........hhhhhhhhhhh........hhhhhhhh...hhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) ----PABS_2  PDB: F:9-238 UniProt: 9-238                                                                                                                                                                                                   ------------------------------------------------ PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------PABS_1        ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3o4f F   5 KQWHETLHDQFGQYFAVDNVLYHE----QDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTD---------TSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALASQ 286
                                    14        24   |    34        44        54        64        74        84        94       104       114       124       134       144       154      |  -      |174       184       194       204       214       224       234       244       254       264       274       284  
                                                  28   33                                                                                                                             161       171                                                                                                                   


Chain G from PDB  Type:PROTEIN  Length:279
 aligned with SPEE_ECOLI | P09158 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:283
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284   
           SPEE_ECOLI     5 KQWHETLHDQFGQYFAVDNVLYHEKTDHQDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTDPIGPGESLFTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALASQP 287
               SCOP domains d3o4fg_ G: automated mat    ches                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee......eeeeee..eeeee.----..eeeeee...eeeeee..eeeee..hhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhhhhhh..eeeee.............eeeeee..............hhhhhhhhhheeeeeeeeeeeee....hhhhhhhhhhhhhhh.eeeeeee.........eeeeeee........hhhhhhhhhhh........hhhhhhhhh..hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----PABS_2  PDB: G:9-238 UniProt: 9-238                                                                                                                                                                                                   ------------------------------------------------- PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------PABS_1        ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3o4f G   5 KQWHETLHDQFGQYFAVDNVLYHE----QDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTDPIGPGESLFTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDALASQP 287
                                    14        24   |    34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284   
                                                  28   33                                                                                                                                                                                                                                                              


Chain H from PDB  Type:PROTEIN  Length:264
 aligned with SPEE_ECOLI | P09158 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:279
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274         
           SPEE_ECOLI     5 KQWHETLHDQFGQYFAVDNVLYHEKTDHQDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDCTDPIGPGESLFTSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDAL 283
               SCOP domains d3o4fh_ H: automated mat    ches                                                                                                                                                                                                                                                        SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) Spermine_synth-3o4fH01 H    :5-247                                                                                                                                                                                                                 ------------------------------------ Pfam domains (1)
           Pfam domains (2) Spermine_synth-3o4fH02 H    :5-247                                                                                                                                                                                                                 ------------------------------------ Pfam domains (2)
           Pfam domains (3) Spermine_synth-3o4fH03 H    :5-247                                                                                                                                                                                                                 ------------------------------------ Pfam domains (3)
           Pfam domains (4) Spermine_synth-3o4fH04 H    :5-247                                                                                                                                                                                                                 ------------------------------------ Pfam domains (4)
           Pfam domains (5) Spermine_synth-3o4fH05 H    :5-247                                                                                                                                                                                                                 ------------------------------------ Pfam domains (5)
           Pfam domains (6) Spermine_synth-3o4fH06 H    :5-247                                                                                                                                                                                                                 ------------------------------------ Pfam domains (6)
           Pfam domains (7) Spermine_synth-3o4fH07 H    :5-247                                                                                                                                                                                                                 ------------------------------------ Pfam domains (7)
           Pfam domains (8) Spermine_synth-3o4fH08 H    :5-247                                                                                                                                                                                                                 ------------------------------------ Pfam domains (8)
         Sec.struct. author .eee......eeeeee..eeeeee----..eeeeee...eeeeee..eeeee..hhhhhhhhhhhhhhhhh....eeeee....hhhhhhhhh.....eeeeee.hhhhhhhhhhhhhhhhhhhhhh..eeeee.............eeeeee..-----------hhhhhhhhhhheeeeeeeeeeeee....hhhhhhhhhhhhhhh.eeeeeee.........eeeeeee...hhhhhhhhhhhhhhhh........hhhhhhhhh..hhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ----PABS_2  PDB: H:9-238 UniProt: 9-238                                                                                                                                                                                                   --------------------------------------------- PROSITE (1)
                PROSITE (2) ----------------------------------------------------------------------------PABS_1        --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3o4f H   5 KQWHETLHDQFGQYFAVDNVLYHE----QDLIIFENAAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLIIGGGDGAMLREVTRHKNVESITMVEIDAGVVSFCRQYLPNHNAGSYDDPRFKLVIDDGVNFVNQTSQTFDVIISDC-----------TSAFYEGCKRCLNPGGIFVAQNGVCFLQQEEAIDSHRKLSHYFSDVGFYQAAIPTYYGGIMTFAWATDNDALRHLSTEIIQARFLASGLKCRYYNPAIHTAAFALPQYLQDAL 283
                                    14        24   |    34        44        54        64        74        84        94       104       114       124       134       144       154    |    -      |174       184       194       204       214       224       234       244       254       264       274         
                                                  28   33                                                                                                                           159         171
   Legend:   → Mismatch (orange background)
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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  (1, 8)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0 ; only for superseded entry 3ADN: 1,8)

(no "CATH Domain" information available for 3O4F, only for superseded entry 3ADN replaced by 3O4F)

(-) Pfam Domains  (1, 8)

Asymmetric Unit
(-)
Clan: NADP_Rossmann (1239)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F,G,H   (SPEE_ECOLI | P09158)
molecular function
    GO:0043918    cadaverine aminopropyltransferase activity    Catalysis of the reaction: S-adenosylmethioninamine + cadaverine = 5'-methylthioadenosine + N-(3-aminopropyl)cadaverine.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0004766    spermidine synthase activity    Catalysis of the reaction: S-adenosylmethioninamine + putrescine = 5'-methylthioadenosine + spermidine.
    GO:0016768    spermine synthase activity    Catalysis of the reaction: S-adenosylmethioninamine + spermidine = 5'-methylthioadenosine + spermine.
    GO:0010487    thermospermine synthase activity    Catalysis of the reaction: S-adenosyl-L-methioninamine + spermidine = S-methyl-5'-thioadenosine + thermospermine + H+.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0006596    polyamine biosynthetic process    The chemical reactions and pathways resulting in the formation of polyamines, any organic compound containing two or more amino groups.
    GO:0008295    spermidine biosynthetic process    The chemical reactions and pathways resulting in the formation of spermidine, N-(3-aminopropyl)-1,4-diaminobutane.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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  3o4f
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 Related Entries

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