BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy4594
(82 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2O05|A Chain A, Human Spermidine Synthase
pdb|2O05|B Chain B, Human Spermidine Synthase
pdb|2O06|A Chain A, Human Spermidine Synthase
pdb|2O06|B Chain B, Human Spermidine Synthase
pdb|2O07|A Chain A, Human Spermidine Synthase
pdb|2O07|B Chain B, Human Spermidine Synthase
pdb|2O0L|A Chain A, Human Spermidine Synthase
pdb|2O0L|B Chain B, Human Spermidine Synthase
Length = 304
Score = 78.2 bits (191), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 35/51 (68%), Positives = 39/51 (76%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGGSTV 76
K +G L+LDG+IQCTE DEFSY EMIA LPLCSHPNP+KVLI G V
Sbjct: 59 KTYGNVLVLDGVIQCTERDEFSYQEMIANLPLCSHPNPRKVLIIGGGDGGV 109
>pdb|3RW9|A Chain A, Crystal Structure Of Human Spermidine Synthase In Complex
With Decarboxylated S-Adenosylhomocysteine
pdb|3RW9|B Chain B, Crystal Structure Of Human Spermidine Synthase In Complex
With Decarboxylated S-Adenosylhomocysteine
Length = 304
Score = 78.2 bits (191), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 35/51 (68%), Positives = 39/51 (76%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGGSTV 76
K +G L+LDG+IQCTE DEFSY EMIA LPLCSHPNP+KVLI G V
Sbjct: 59 KTYGNVLVLDGVIQCTERDEFSYQEMIANLPLCSHPNPRKVLIIGGGDGGV 109
>pdb|2B2C|A Chain A, Cloning, Expression, Characterisation And Three-
Dimensional Structure Determination Of The
Caenorhabditis Elegans Spermidine Synthase
pdb|2B2C|B Chain B, Cloning, Expression, Characterisation And Three-
Dimensional Structure Determination Of The
Caenorhabditis Elegans Spermidine Synthase
Length = 314
Score = 62.4 bits (150), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 25/40 (62%), Positives = 33/40 (82%)
Query: 28 FGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVL 67
+G L+LDGI+Q TE DEFSY EM+A LP+ +HP+PK+VL
Sbjct: 74 YGNVLVLDGIVQATERDEFSYQEMLAHLPMFAHPDPKRVL 113
>pdb|1XJ5|A Chain A, X-Ray Structure Of Spermidine Synthase From Arabidopsis
Thaliana Gene At1g23820
pdb|1XJ5|B Chain B, X-Ray Structure Of Spermidine Synthase From Arabidopsis
Thaliana Gene At1g23820
pdb|1XJ5|C Chain C, X-Ray Structure Of Spermidine Synthase From Arabidopsis
Thaliana Gene At1g23820
pdb|1XJ5|D Chain D, X-Ray Structure Of Spermidine Synthase From Arabidopsis
Thaliana Gene At1g23820
pdb|2Q41|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Spermidine Synthase From Arabidopsis Thaliana Gene
At1g23820
pdb|2Q41|D Chain D, Ensemble Refinement Of The Protein Crystal Structure Of
Spermidine Synthase From Arabidopsis Thaliana Gene
At1g23820
pdb|2Q41|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of
Spermidine Synthase From Arabidopsis Thaliana Gene
At1g23820
pdb|2Q41|C Chain C, Ensemble Refinement Of The Protein Crystal Structure Of
Spermidine Synthase From Arabidopsis Thaliana Gene
At1g23820
Length = 334
Score = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 28/49 (57%), Positives = 33/49 (67%)
Query: 28 FGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGGSTV 76
+G L+LDG+IQ TE DE +Y E I LPLCS PNPKKVL+ G V
Sbjct: 86 YGKVLVLDGVIQLTERDECAYQEXITHLPLCSIPNPKKVLVIGGGDGGV 134
>pdb|1JQ3|A Chain A, Crystal Structure Of Spermidine Synthase In Complex With
Transition State Analogue Adodato
pdb|1JQ3|B Chain B, Crystal Structure Of Spermidine Synthase In Complex With
Transition State Analogue Adodato
pdb|1JQ3|C Chain C, Crystal Structure Of Spermidine Synthase In Complex With
Transition State Analogue Adodato
pdb|1JQ3|D Chain D, Crystal Structure Of Spermidine Synthase In Complex With
Transition State Analogue Adodato
pdb|1INL|A Chain A, Crystal Structure Of Spermidine Synthase From Thermotoga
Maritima
pdb|1INL|B Chain B, Crystal Structure Of Spermidine Synthase From Thermotoga
Maritima
pdb|1INL|C Chain C, Crystal Structure Of Spermidine Synthase From Thermotoga
Maritima
pdb|1INL|D Chain D, Crystal Structure Of Spermidine Synthase From Thermotoga
Maritima
Length = 296
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/52 (51%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 27 EFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVG-GSTVQ 77
+ G LDGI TE DEF Y EM+A +P+ HPNPKKVLI G G T++
Sbjct: 55 DLGVVFALDGITMTTEKDEFMYHEMLAHVPMFLHPNPKKVLIIGGGDGGTLR 106
>pdb|3BWB|A Chain A, Crystal Structure Of The Apo Form Of Spermidine Synthase
From Trypanosoma Cruzi At 2.5 A Resolution
pdb|3BWB|B Chain B, Crystal Structure Of The Apo Form Of Spermidine Synthase
From Trypanosoma Cruzi At 2.5 A Resolution
pdb|3BWC|A Chain A, Crystal Structure Of Spermidine Synthase From Trypanosoma
Cruzi In Complex With Sam At 2.3 A Resolution
pdb|3BWC|B Chain B, Crystal Structure Of Spermidine Synthase From Trypanosoma
Cruzi In Complex With Sam At 2.3 A Resolution
Length = 304
Score = 53.5 bits (127), Expect = 3e-08, Method: Composition-based stats.
Identities = 25/52 (48%), Positives = 34/52 (65%), Gaps = 2/52 (3%)
Query: 22 SSNRKEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
S + +GT LDG IQ T++DEF Y E++ LCSHP P++VLI +GG
Sbjct: 55 SDPKGPWGTVXALDGCIQVTDYDEFVYHEVLGHTSLCSHPKPERVLI--IGG 104
>pdb|1IY9|A Chain A, Crystal Structure Of Spermidine Synthase
pdb|1IY9|B Chain B, Crystal Structure Of Spermidine Synthase
pdb|1IY9|C Chain C, Crystal Structure Of Spermidine Synthase
pdb|1IY9|D Chain D, Crystal Structure Of Spermidine Synthase
Length = 275
Score = 52.8 bits (125), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 21/39 (53%), Positives = 29/39 (74%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPK 64
+EFG L LDG++ +E DEF Y EM+A +PL +HPNP+
Sbjct: 39 EEFGNMLFLDGMVMTSEKDEFVYHEMVAHVPLFTHPNPE 77
>pdb|3O4F|A Chain A, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|B Chain B, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|C Chain C, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|D Chain D, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|E Chain E, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|F Chain F, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|G Chain G, Crystal Structure Of Spermidine Synthase From E. Coli
pdb|3O4F|H Chain H, Crystal Structure Of Spermidine Synthase From E. Coli
Length = 294
Score = 48.9 bits (115), Expect = 6e-07, Method: Composition-based stats.
Identities = 23/46 (50%), Positives = 31/46 (67%), Gaps = 2/46 (4%)
Query: 28 FGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
FG + LDG++Q TE DEF Y EM+ +PL +H + K VLI +GG
Sbjct: 49 FGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLI--IGG 92
>pdb|3ANX|A Chain A, Crystal Structure Of TriamineAGMATINE
AMINOPROPYLTRANSFERASE (SPEE) From Thermus
Thermophilus, Complexed With Mta
pdb|3ANX|B Chain B, Crystal Structure Of TriamineAGMATINE
AMINOPROPYLTRANSFERASE (SPEE) From Thermus
Thermophilus, Complexed With Mta
Length = 314
Score = 46.6 bits (109), Expect = 3e-06, Method: Composition-based stats.
Identities = 24/48 (50%), Positives = 30/48 (62%), Gaps = 2/48 (4%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
K FG LILD +Q TE DE+ Y E + + +HP PK+VLI VGG
Sbjct: 41 KGFGKVLILDKDVQSTERDEYIYHETLVHPAMLTHPEPKRVLI--VGG 86
>pdb|1UIR|A Chain A, Crystal Structure Of Polyamine Aminopropyltransfease
From Thermus Thermophilus
pdb|1UIR|B Chain B, Crystal Structure Of Polyamine Aminopropyltransfease
From Thermus Thermophilus
Length = 314
Score = 46.6 bits (109), Expect = 4e-06, Method: Composition-based stats.
Identities = 24/48 (50%), Positives = 30/48 (62%), Gaps = 2/48 (4%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
K FG LILD +Q TE DE+ Y E + + +HP PK+VLI VGG
Sbjct: 41 KGFGKVLILDKDVQSTERDEYIYHETLVHPAMLTHPEPKRVLI--VGG 86
>pdb|2PWP|A Chain A, Crystal Structure Of Spermidine Synthase From Plasmodium
Falciparum In Complex With Spermidine
pdb|2PWP|B Chain B, Crystal Structure Of Spermidine Synthase From Plasmodium
Falciparum In Complex With Spermidine
pdb|2PWP|C Chain C, Crystal Structure Of Spermidine Synthase From Plasmodium
Falciparum In Complex With Spermidine
Length = 282
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 28 FGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPK 64
+G L+LDG+IQ TE DEF+Y EM+ +P+ PK
Sbjct: 43 YGKVLVLDGVIQLTEKDEFAYHEMMTHVPMTVSKEPK 79
>pdb|2HTE|A Chain A, The Crystal Structure Of Spermidine Synthase From P.
Falciparum In Complex With 5'-Methylthioadenosine
pdb|2HTE|B Chain B, The Crystal Structure Of Spermidine Synthase From P.
Falciparum In Complex With 5'-Methylthioadenosine
pdb|2HTE|C Chain C, The Crystal Structure Of Spermidine Synthase From P.
Falciparum In Complex With 5'-Methylthioadenosine
pdb|2I7C|A Chain A, The Crystal Structure Of Spermidine Synthase From P.
Falciparum In Complex With Adodato
pdb|2I7C|B Chain B, The Crystal Structure Of Spermidine Synthase From P.
Falciparum In Complex With Adodato
pdb|2I7C|C Chain C, The Crystal Structure Of Spermidine Synthase From P.
Falciparum In Complex With Adodato
pdb|3B7P|A Chain A, Crystal Structure Of Spermidine Synthase From Plasmodium
Falciparum In Complex With Spermine
pdb|3B7P|B Chain B, Crystal Structure Of Spermidine Synthase From Plasmodium
Falciparum In Complex With Spermine
pdb|3B7P|C Chain C, Crystal Structure Of Spermidine Synthase From Plasmodium
Falciparum In Complex With Spermine
pdb|3RIE|A Chain A, The Structure Of Plasmodium Falciparum Spermidine
Synthase In Complex With 5'-Methylthioadenosine And
N-(3-Aminopropyl)-Trans-Cyclohexane- 1,4-Diamine
pdb|3RIE|B Chain B, The Structure Of Plasmodium Falciparum Spermidine
Synthase In Complex With 5'-Methylthioadenosine And
N-(3-Aminopropyl)-Trans-Cyclohexane- 1,4-Diamine
pdb|3RIE|C Chain C, The Structure Of Plasmodium Falciparum Spermidine
Synthase In Complex With 5'-Methylthioadenosine And
N-(3-Aminopropyl)-Trans-Cyclohexane- 1,4-Diamine
Length = 283
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 28 FGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPK 64
+G L+LDG+IQ TE DEF+Y EM+ +P+ PK
Sbjct: 44 YGKVLVLDGVIQLTEKDEFAYHEMMTHVPMTVSKEPK 80
>pdb|2PSS|A Chain A, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Its Apo- Form
pdb|2PSS|B Chain B, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Its Apo- Form
pdb|2PSS|C Chain C, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Its Apo- Form
pdb|2PT6|A Chain A, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With Decarboxylated S-Adenosylmethionine
pdb|2PT6|B Chain B, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With Decarboxylated S-Adenosylmethionine
pdb|2PT6|C Chain C, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With Decarboxylated S-Adenosylmethionine
pdb|2PT9|A Chain A, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With Decarboxylated S-Adenosylmethionine And
The Inhibitor Cis-4- Methylcyclohexylamine (4mcha)
pdb|2PT9|B Chain B, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With Decarboxylated S-Adenosylmethionine And
The Inhibitor Cis-4- Methylcyclohexylamine (4mcha)
pdb|2PT9|C Chain C, The Structure Of Plasmodium Falciparum Spermidine Synthase
In Complex With Decarboxylated S-Adenosylmethionine And
The Inhibitor Cis-4- Methylcyclohexylamine (4mcha)
Length = 321
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 28 FGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPK 64
+G L+LDG+IQ TE DEF+Y EM+ +P+ PK
Sbjct: 82 YGKVLVLDGVIQLTEKDEFAYHEMMTHVPMTVSKEPK 118
>pdb|1MJF|A Chain A, Putative Spermidine Synthetase From Pyrococcus Furiosus
Pfu- 132382
pdb|1MJF|B Chain B, Putative Spermidine Synthetase From Pyrococcus Furiosus
Pfu- 132382
Length = 281
Score = 39.7 bits (91), Expect = 4e-04, Method: Composition-based stats.
Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 28 FGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVG-GSTVQ 77
FG L LDG +Q E SY E + + +HP PK+VL+ G G TV+
Sbjct: 41 FGRLLALDGTVQLVTLGERSYHEPLVHPAMLAHPKPKRVLVIGGGDGGTVR 91
>pdb|2E5W|A Chain A, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3
pdb|2E5W|B Chain B, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3
pdb|2E5W|C Chain C, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3
pdb|2E5W|D Chain D, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3
pdb|2ZSU|A Chain A, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3, P1 Form
pdb|2ZSU|B Chain B, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3, P1 Form
pdb|2ZSU|C Chain C, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3, P1 Form
pdb|2ZSU|D Chain D, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3, P1 Form
pdb|2ZSU|E Chain E, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3, P1 Form
pdb|2ZSU|F Chain F, Crystal Structure Of Spermidine Synthase From Pyrococcus
Horikoshii Ot3, P1 Form
Length = 280
Score = 35.8 bits (81), Expect = 0.007, Method: Composition-based stats.
Identities = 16/40 (40%), Positives = 23/40 (57%)
Query: 28 FGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVL 67
FG L +DG +Q E SY E + + +HPNP++VL
Sbjct: 42 FGKLLAIDGTVQLVTEGEKSYHEPLVHPAMLAHPNPRRVL 81
>pdb|1UA7|A Chain A, Crystal Structure Analysis Of Alpha-Amylase From Bacillus
Subtilis Complexed With Acarbose
Length = 422
Score = 28.1 bits (61), Expect = 1.3, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPK 64
+E+G +I+D +I T FD + S + +P +H N +
Sbjct: 85 EEYGIKVIVDAVINHTTFDYAAISNEVKSIPNWTHGNTQ 123
>pdb|1BAG|A Chain A, Alpha-Amylase From Bacillus Subtilis Complexed With
Maltopentaose
Length = 425
Score = 28.1 bits (61), Expect = 1.3, Method: Composition-based stats.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPK 64
+E+G +I+D +I T FD + S + +P +H N +
Sbjct: 88 EEYGIKVIVDAVINHTTFDYAAISNEVKSIPNWTHGNTQ 126
>pdb|1S1M|A Chain A, Crystal Structure Of E. Coli Ctp Synthetase
pdb|1S1M|B Chain B, Crystal Structure Of E. Coli Ctp Synthetase
pdb|2AD5|A Chain A, Mechanisms Of Feedback Regulation And Drug Resistance Of
Ctp Synthetases: Structure Of The E. Coli Ctps/ctp
Complex At 2.8- Angstrom Resolution.
pdb|2AD5|B Chain B, Mechanisms Of Feedback Regulation And Drug Resistance Of
Ctp Synthetases: Structure Of The E. Coli Ctps/ctp
Complex At 2.8- Angstrom Resolution
Length = 545
Score = 27.3 bits (59), Expect = 2.1, Method: Composition-based stats.
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 2 SGDDKKVRVLSYPNKPFYPSSSNRKEF 28
SGDD+ V ++ PN P++ + EF
Sbjct: 492 SGDDQLVEIIEVPNHPWFVACQFHPEF 518
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.139 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,584,291
Number of Sequences: 62578
Number of extensions: 87470
Number of successful extensions: 156
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 137
Number of HSP's gapped (non-prelim): 19
length of query: 82
length of database: 14,973,337
effective HSP length: 51
effective length of query: 31
effective length of database: 11,781,859
effective search space: 365237629
effective search space used: 365237629
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)