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= psy16773
(124 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1S3I|A Chain A, Crystal Structure Of The N Terminal Hydrolase Domain Of
10- Formyltetrahydrofolate Dehydrogenase
Length = 310
Score = 52.8 bits (125), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 23/40 (57%), Positives = 29/40 (72%)
Query: 62 LRVAVIGQSSFAAEVYKLLKKNGHSVVGVFTVVDKANRED 101
+++AVIGQS F EVY L+K GH VVGVFT+ DK + D
Sbjct: 1 MKIAVIGQSLFGQEVYCQLRKEGHEVVGVFTIPDKDGKAD 40
>pdb|2BW0|A Chain A, Crystal Structure Of The Hydrolase Domain Of Human 10-
Formyltetrahydrofolate 2 Dehydrogenase
pdb|2CFI|A Chain A, The Hydrolase Domain Of Human 10-Fthfd In Complex With 6-
Formyltetrahydropterin
Length = 329
Score = 52.4 bits (124), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 24/40 (60%), Positives = 29/40 (72%)
Query: 62 LRVAVIGQSSFAAEVYKLLKKNGHSVVGVFTVVDKANRED 101
+++AVIGQS F EVY L+K GH VVGVFTV DK + D
Sbjct: 23 MKIAVIGQSLFGQEVYCHLRKEGHEVVGVFTVPDKDGKAD 62
>pdb|1FMT|A Chain A, Methionyl-Trnafmet Formyltransferase From Escherichia
Coli
pdb|1FMT|B Chain B, Methionyl-Trnafmet Formyltransferase From Escherichia
Coli
pdb|2FMT|A Chain A, Methionyl-Trnafmet Formyltransferase Complexed With
Formyl- Methionyl-Trnafmet
pdb|2FMT|B Chain B, Methionyl-Trnafmet Formyltransferase Complexed With
Formyl- Methionyl-Trnafmet
Length = 314
Score = 32.3 bits (72), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 20/35 (57%)
Query: 62 LRVAVIGQSSFAAEVYKLLKKNGHSVVGVFTVVDK 96
LR+ G FAA L +GH+VVGVFT D+
Sbjct: 4 LRIIFAGTPDFAARHLDALLSSGHNVVGVFTQPDR 38
>pdb|3R8X|A Chain A, Crystal Structure Of Methionyl-Trna Formyltransferase
From Yersinia Pestis Complexed With L-Methionine
Length = 318
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 18/35 (51%)
Query: 62 LRVAVIGQSSFAAEVYKLLKKNGHSVVGVFTVVDK 96
LR+ G FAA L + H +VGVFT D+
Sbjct: 8 LRIIFAGTPDFAARHLGALLSSQHKIVGVFTQPDR 42
>pdb|2BMV|A Chain A, Apoflavodoxin From Helicobacter Pylori
Length = 164
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 66 VIGQSSFAAEVYKLLKK-NGHSVVGVFTVVDKANREDIVDEMYSLWRVALTATF 118
V+GQ+S ++ K G VG+ V+D+ N++D+ DE S W + +F
Sbjct: 112 VVGQTSTDGYHFEASKAVEGGKFVGL--VIDEDNQDDLTDERISKWVEQVKGSF 163
>pdb|2W5U|A Chain A, Flavodoxin From Helicobacter Pylori In Complex With The C3
Inhibitor
pdb|2W5U|B Chain B, Flavodoxin From Helicobacter Pylori In Complex With The C3
Inhibitor
Length = 164
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 66 VIGQSSFAAEVYKLLKK-NGHSVVGVFTVVDKANREDIVDEMYSLWRVALTATF 118
V+GQ+S ++ K G VG+ V+D+ N++D+ DE S W + +F
Sbjct: 112 VVGQTSTDGYHFEASKAVEGGKFVGL--VIDEDNQDDLTDERISKWVEQVRGSF 163
>pdb|3QY9|A Chain A, The Crystal Structure Of Dihydrodipicolinate Reductase
From Staphylococcus Aureus
pdb|3QY9|B Chain B, The Crystal Structure Of Dihydrodipicolinate Reductase
From Staphylococcus Aureus
pdb|3QY9|C Chain C, The Crystal Structure Of Dihydrodipicolinate Reductase
From Staphylococcus Aureus
pdb|3QY9|D Chain D, The Crystal Structure Of Dihydrodipicolinate Reductase
From Staphylococcus Aureus
Length = 243
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 62 LRVAVIGQSSFAAEVYKLLKKNGHSVVGVFTVVDKA 97
+++ +IG + V +L ++ GH +VGV KA
Sbjct: 4 MKILLIGYGAMNQRVARLAEEKGHEIVGVIENTPKA 39
>pdb|2F1K|A Chain A, Crystal Structure Of Synechocystis Arogenate Dehydrogenase
pdb|2F1K|B Chain B, Crystal Structure Of Synechocystis Arogenate Dehydrogenase
pdb|2F1K|C Chain C, Crystal Structure Of Synechocystis Arogenate Dehydrogenase
pdb|2F1K|D Chain D, Crystal Structure Of Synechocystis Arogenate Dehydrogenase
Length = 279
Score = 26.2 bits (56), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 25/47 (53%), Gaps = 3/47 (6%)
Query: 62 LRVAVIGQSSFAAEVYKLLKKNGHSVVGV---FTVVDKANREDIVDE 105
+++ V+G A + L++ GH ++GV + +KA +VDE
Sbjct: 1 MKIGVVGLGLIGASLAGDLRRRGHYLIGVSRQQSTCEKAVERQLVDE 47
>pdb|2P1Z|A Chain A, Crystal Structure Of Phosphoribosyltransferase From
Corynebacterium Diphtheriae
pdb|2P1Z|B Chain B, Crystal Structure Of Phosphoribosyltransferase From
Corynebacterium Diphtheriae
Length = 180
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 78 KLLKKNGHSVVGVFTVVDKA 97
K L++ G VVGV TVVD+A
Sbjct: 135 KALREAGAEVVGVATVVDRA 154
>pdb|2CJQ|A Chain A, Bovine Viral Diarrhea Virus Cp7-R12 Rna-Dependent Rna
Polymerase
Length = 720
Score = 25.4 bits (54), Expect = 8.0, Method: Composition-based stats.
Identities = 8/28 (28%), Positives = 17/28 (60%)
Query: 33 LTLVRTICHPTGIVFRRSGSKSSQIHKC 60
LT++ C TG+ ++ ++ ++IH C
Sbjct: 420 LTMMYAFCESTGVPYKSFNNRVARIHVC 447
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
0.322 0.133 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,228,896
Number of Sequences: 62578
Number of extensions: 105322
Number of successful extensions: 337
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 328
Number of HSP's gapped (non-prelim): 15
length of query: 124
length of database: 14,973,337
effective HSP length: 85
effective length of query: 39
effective length of database: 9,654,207
effective search space: 376514073
effective search space used: 376514073
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)