RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4594
(82 letters)
>1xj5_A Spermidine synthase 1; structural genomics, protein structure
initiative, CESG, AT1G23820, putrescine aminopropyl
transferase, SPDS1; 2.70A {Arabidopsis thaliana} SCOP:
c.66.1.17 PDB: 2q41_A
Length = 334
Score = 86.3 bits (214), Expect = 3e-22
Identities = 29/48 (60%), Positives = 35/48 (72%), Gaps = 2/48 (4%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
+G L+LDG+IQ TE DE +Y EMI LPLCS PNPKKVL+ +GG
Sbjct: 84 ATYGKVLVLDGVIQLTERDECAYQEMITHLPLCSIPNPKKVLV--IGG 129
>2i7c_A Spermidine synthase; transferase, structural genomics consor;
HET: AAT 1PG; 1.71A {Plasmodium falciparum} PDB:
2hte_A* 3b7p_A* 3rie_A* 2pwp_A*
Length = 283
Score = 85.4 bits (212), Expect = 3e-22
Identities = 23/48 (47%), Positives = 31/48 (64%), Gaps = 2/48 (4%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
+G L+LDG+IQ TE DEF+Y EM+ +P+ PK VL+ VGG
Sbjct: 42 TTYGKVLVLDGVIQLTEKDEFAYHEMMTHVPMTVSKEPKNVLV--VGG 87
>1iy9_A Spermidine synthase; rossmann fold, structural genomics, PSI,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.30A {Bacillus subtilis}
SCOP: c.66.1.17
Length = 275
Score = 85.4 bits (212), Expect = 4e-22
Identities = 26/48 (54%), Positives = 35/48 (72%), Gaps = 2/48 (4%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
+EFG L LDG++ +E DEF Y EM+A +PL +HPNP+ VL+ VGG
Sbjct: 39 EEFGNMLFLDGMVMTSEKDEFVYHEMVAHVPLFTHPNPEHVLV--VGG 84
>2b2c_A Spermidine synthase; beta-alpha, transferase; 2.50A {Caenorhabditis
elegans} SCOP: c.66.1.17
Length = 314
Score = 85.5 bits (212), Expect = 5e-22
Identities = 28/48 (58%), Positives = 37/48 (77%), Gaps = 2/48 (4%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
+G L+LDGI+Q TE DEFSY EM+A LP+ +HP+PK+VLI +GG
Sbjct: 72 TTYGNVLVLDGIVQATERDEFSYQEMLAHLPMFAHPDPKRVLI--IGG 117
>3adn_A Spermidine synthase; aminopropyltransferase, polyamine synthase,
rossmann fold, polyamine biosynthesis, spermidine
biosynthesis, transferase; 2.90A {Escherichia coli}
PDB: 3o4f_A
Length = 294
Score = 85.0 bits (211), Expect = 6e-22
Identities = 23/48 (47%), Positives = 31/48 (64%), Gaps = 2/48 (4%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
FG + LDG++Q TE DEF Y EM+ +PL +H + K VLI +GG
Sbjct: 47 AAFGRVMALDGVVQTTERDEFIYHEMMTHVPLLAHGHAKHVLI--IGG 92
>2pt6_A Spermidine synthase; transferase, structural genomics consor
SGC,dcadoMet complex; HET: S4M 1PG; 2.00A {Plasmodium
falciparum} PDB: 2pss_A* 2pt9_A*
Length = 321
Score = 85.5 bits (212), Expect = 6e-22
Identities = 23/48 (47%), Positives = 31/48 (64%), Gaps = 2/48 (4%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
+G L+LDG+IQ TE DEF+Y EM+ +P+ PK VL+ VGG
Sbjct: 80 TTYGKVLVLDGVIQLTEKDEFAYHEMMTHVPMTVSKEPKNVLV--VGG 125
>2o07_A Spermidine synthase; structural genomics, structural genomics
consortium, SGC, transferase; HET: SPD MTA; 1.89A {Homo
sapiens} SCOP: c.66.1.17 PDB: 2o06_A* 2o05_A* 2o0l_A*
3rw9_A*
Length = 304
Score = 85.0 bits (211), Expect = 6e-22
Identities = 35/48 (72%), Positives = 40/48 (83%), Gaps = 2/48 (4%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
K +G L+LDG+IQCTE DEFSY EMIA LPLCSHPNP+KVLI +GG
Sbjct: 59 KTYGNVLVLDGVIQCTERDEFSYQEMIANLPLCSHPNPRKVLI--IGG 104
>1inl_A Spermidine synthase; beta-barrel, rossman fold, structural
genomics, PSI, protein structure initiative; 1.50A
{Thermotoga maritima} SCOP: c.66.1.17 PDB: 1jq3_A*
Length = 296
Score = 84.6 bits (210), Expect = 7e-22
Identities = 26/48 (54%), Positives = 31/48 (64%), Gaps = 2/48 (4%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
+ G LDGI TE DEF Y EM+A +P+ HPNPKKVLI +GG
Sbjct: 54 PDLGVVFALDGITMTTEKDEFMYHEMLAHVPMFLHPNPKKVLI--IGG 99
>1mjf_A Spermidine synthase; spermidine synthetase, structural genomics,
PSI, protein structure initiative; 1.80A {Pyrococcus
furiosus} SCOP: c.66.1.17 PDB: 2e5w_A* 2zsu_A*
Length = 281
Score = 83.5 bits (207), Expect = 2e-21
Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 2/49 (4%)
Query: 25 RKEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
+ FG L LDG +Q E SY E + + +HP PK+VL+ +GG
Sbjct: 38 TEGFGRLLALDGTVQLVTLGERSYHEPLVHPAMLAHPKPKRVLV--IGG 84
>1uir_A Polyamine aminopropyltransferase; spermidien synthase, spermine
synthase, riken STR genomics/proteomics initiative,
RSGI; 2.00A {Thermus thermophilus} SCOP: c.66.1.17 PDB:
3anx_A*
Length = 314
Score = 83.9 bits (208), Expect = 2e-21
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
>3bwc_A Spermidine synthase; SAM, SGPP, structura genomics, PSI, protein
structure initiative, structural GEN pathogenic protozoa
consortium; HET: MSE SAM; 2.30A {Trypanosoma cruzi} PDB:
3bwb_A*
Length = 304
Score = 83.6 bits (207), Expect = 2e-21
Identities = 25/52 (48%), Positives = 35/52 (67%), Gaps = 2/52 (3%)
Query: 22 SSNRKEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
S + +GT + LDG IQ T++DEF Y E++ LCSHP P++VLI +GG
Sbjct: 55 SDPKGPWGTVMALDGCIQVTDYDEFVYHEVLGHTSLCSHPKPERVLI--IGG 104
>2qfm_A Spermine synthase; spermidine aminopropyltransferase, SPMSY,
structural genomics, structural genomics consortium,
SGC; HET: SPD MTA; 1.80A {Homo sapiens} PDB: 3c6k_A*
3c6m_A*
Length = 364
Score = 69.5 bits (170), Expect = 6e-16
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 4/48 (8%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
K+FG LIL G + E D +Y+ I + K VLI +GG
Sbjct: 154 KQFGNILILSGDVNLAESD-LAYTRAIMGSGKEDYT-GKDVLI--LGG 197
>2cmg_A Spermidine synthase; transferase, putrescine
aminopropyltransferase, spermidine biosynthesis,
polyamine biosynthesis, SPEE; 2.0A {Helicobacter
pylori} PDB: 2cmh_A
Length = 262
Score = 65.9 bits (161), Expect = 7e-15
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 26 KEFGTALILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKKVLIFTVGG 73
K+FG +L+ + SE++A + C+ K+VLI V G
Sbjct: 37 KDFGEIAMLNRQLLFKN-FLHIESELLAHMGGCTKKELKEVLI--VDG 81
>3gjy_A Spermidine synthase; APC62791, structural genomics, PSI-2,
protein structure initiative; HET: MSE; 1.47A
{Corynebacterium glutamicum atcc 13032}
Length = 317
Score = 38.0 bits (88), Expect = 7e-05
Identities = 12/57 (21%), Positives = 21/57 (36%), Gaps = 9/57 (15%)
Query: 26 KEFGTALILDGIIQCT------EFDEFSYSEMIAFLPLC---SHPNPKKVLIFTVGG 73
G + ++G+ + EF Y IA +H + K+ I +GG
Sbjct: 42 TTDGWLISINGVPSSHIVLGQPQALEFEYMRWIATGARAFIDAHQDASKLRITHLGG 98
>2pqp_A HD7A, histone deacetylase 7A; HDAC, structural genomics, structural
genomics consortium, SGC; HET: TSN; 1.80A {Homo sapiens}
PDB: 2pqo_A* 2nvr_A 3c0y_A 3c0z_A 3c10_A* 2vqm_A*
2vqj_A* 2vqw_G 2vqq_A* 2vqo_A* 2vqv_A*
Length = 421
Score = 27.8 bits (62), Expect = 0.29
Identities = 8/30 (26%), Positives = 12/30 (40%), Gaps = 3/30 (10%)
Query: 4 DDKKVRVLS---YPNKPFYPSSSNRKEFGT 30
D V +S + + F+P S E G
Sbjct: 238 QDPSVLYISLHRHDDGNFFPGSGAVDEVGA 267
>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein
O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB:
2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*
Length = 568
Score = 26.3 bits (58), Expect = 0.97
Identities = 7/34 (20%), Positives = 12/34 (35%), Gaps = 1/34 (2%)
Query: 32 LILDGIIQCTEFDEFSYSEMIAFLPLCSHPNPKK 65
++ D + F YSE + L P+
Sbjct: 327 VLGDAFALPPALEPF-YSEHVLRLQGAFQPSDTS 359
>1kyq_A Met8P, siroheme biosynthesis protein Met8; homodimer,
oxidoreductase, lyase; HET: NAD; 2.20A {Saccharomyces
cerevisiae} SCOP: c.2.1.11 e.37.1.1
Length = 274
Score = 25.8 bits (56), Expect = 1.7
Identities = 8/26 (30%), Positives = 13/26 (50%), Gaps = 2/26 (7%)
Query: 51 MIAFLPLCSHPNPKKVLIFTVGGSTV 76
M+ L L K++L+ +GG V
Sbjct: 1 MVKSLQLAHQLKDKRILL--IGGGEV 24
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 24.9 bits (53), Expect = 3.1
Identities = 5/36 (13%), Positives = 14/36 (38%), Gaps = 6/36 (16%)
Query: 4 DDKKVRVLSYPNKPFYPSSSNRKEFGTALILDGIIQ 39
+ + ++ L K + S+ AL + ++
Sbjct: 18 EKQALKKLQASLKLYADDSA------PALAIKATME 47
>3r64_A NAD dependent benzaldehyde dehydrogenase; structural genomics,
PSI-biology, NEW YORK structural genomi research
consortium, nysgrc; 2.57A {Corynebacterium glutamicum}
Length = 508
Score = 24.9 bits (55), Expect = 3.2
Identities = 8/20 (40%), Positives = 10/20 (50%), Gaps = 3/20 (15%)
Query: 56 PLCSHPNPKKVLIFTVGGST 75
+H PK + FT GST
Sbjct: 222 HFVTHAVPKLI-SFT--GST 238
>4dng_A Uncharacterized aldehyde dehydrogenase ALDY; structural genomics,
protein structure initiative, nysgrc, P biology; 2.50A
{Bacillus subtilis}
Length = 485
Score = 24.8 bits (55), Expect = 3.6
Identities = 7/20 (35%), Positives = 12/20 (60%), Gaps = 3/20 (15%)
Query: 56 PLCSHPNPKKVLIFTVGGST 75
+ ++P P+ + FT GST
Sbjct: 217 GMLTNPIPRL-ISFT--GST 233
>3d2f_A Heat shock protein homolog SSE1; nucleotide exchange factor,
protein folding, ATP-binding, Ca binding, chaperone,
nucleotide-binding, phosphoprotein; HET: ATP; 2.30A
{Saccharomyces cerevisiae} PDB: 3d2e_A* 3c7n_A* 2qxl_A*
Length = 675
Score = 24.6 bits (54), Expect = 4.3
Identities = 5/18 (27%), Positives = 8/18 (44%)
Query: 62 NPKKVLIFTVGGSTVQYS 79
P+ V +G S+ S
Sbjct: 195 KPRIVAFVDIGHSSYTCS 212
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.321 0.139 0.422
Gapped
Lambda K H
0.267 0.0793 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,258,694
Number of extensions: 61680
Number of successful extensions: 129
Number of sequences better than 10.0: 1
Number of HSP's gapped: 126
Number of HSP's successfully gapped: 22
Length of query: 82
Length of database: 6,701,793
Length adjustment: 51
Effective length of query: 31
Effective length of database: 5,277,822
Effective search space: 163612482
Effective search space used: 163612482
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (23.3 bits)