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= psy15301
(947 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1FL0|A Chain A, Crystal Structure Of The Emap2RNA-Binding Domain Of The
P43 Protein From Human Aminoacyl-Trna Synthetase Complex
Length = 171
Score = 47.4 bits (111), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/48 (47%), Positives = 28/48 (58%)
Query: 204 RWKLHGYTRNPDPVLNPKKKIFETVAPDLKTNDSNQATYKGKVWTVEN 251
R + PD LNPKKKI+E + PDL TND ATYKG + V+
Sbjct: 101 RITFDAFPGEPDKELNPKKKIWEQIQPDLHTNDECVATYKGVPFEVKG 148
>pdb|1E7Z|A Chain A, Crystal Structure Of The Emap2RNA BINDING DOMAIN OF THE
P43 Protein From Human Aminoacyl-Trna Synthetase Complex
Length = 174
Score = 47.4 bits (111), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/48 (47%), Positives = 28/48 (58%)
Query: 204 RWKLHGYTRNPDPVLNPKKKIFETVAPDLKTNDSNQATYKGKVWTVEN 251
R + PD LNPKKKI+E + PDL TND ATYKG + V+
Sbjct: 104 RITFDAFPGEPDKELNPKKKIWEQIQPDLHTNDECVATYKGVPFEVKG 151
>pdb|1EUJ|A Chain A, A Novel Anti-Tumor Cytokine Contains A Rna-Binding Motif
Present In Aminoacyl-Trna Synthetases
pdb|1EUJ|B Chain B, A Novel Anti-Tumor Cytokine Contains A Rna-Binding Motif
Present In Aminoacyl-Trna Synthetases
Length = 166
Score = 47.4 bits (111), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/48 (47%), Positives = 28/48 (58%)
Query: 204 RWKLHGYTRNPDPVLNPKKKIFETVAPDLKTNDSNQATYKGKVWTVEN 251
R + PD LNPKKKI+E + PDL TND ATYKG + V+
Sbjct: 104 RITFDAFPGEPDKELNPKKKIWEQIQPDLHTNDECVATYKGVPFEVKG 151
>pdb|3ISL|A Chain A, Crystal Structure Of Ureidoglycine-Glyoxylate
Aminotransferase (Pucg) From Bacillus Subtilis
pdb|3ISL|B Chain B, Crystal Structure Of Ureidoglycine-Glyoxylate
Aminotransferase (Pucg) From Bacillus Subtilis
Length = 416
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 33/67 (49%), Gaps = 10/67 (14%)
Query: 348 DIVADKSNV-------SDTTNITDNTSHRPVTTNKTDLSQDKTESSVNKLNVRMEPAELL 400
D++A + V +D ++ N RP+T+N DLSQ + S +LN E +L
Sbjct: 217 DVIAARKKVERGIATQADRAALSGN---RPITSNYFDLSQLEDYWSERRLNHHTEATTML 273
Query: 401 QKLQENV 407
L+E V
Sbjct: 274 YALREGV 280
>pdb|1NTG|A Chain A, Crystal Structure Of The Emap Ii-Like Cytokine Released
From Human Tyrosyl-Trna Synthetase
pdb|1NTG|B Chain B, Crystal Structure Of The Emap Ii-Like Cytokine Released
From Human Tyrosyl-Trna Synthetase
pdb|1NTG|C Chain C, Crystal Structure Of The Emap Ii-Like Cytokine Released
From Human Tyrosyl-Trna Synthetase
pdb|1NTG|D Chain D, Crystal Structure Of The Emap Ii-Like Cytokine Released
From Human Tyrosyl-Trna Synthetase
Length = 172
Score = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 207 LHGYTRN-PDPVLNPKKKIFETVAPDLKTNDSNQATYK 243
+ GY + PD L PKKK+FE + D K ++ A +K
Sbjct: 111 VKGYEKGQPDEELKPKKKVFEKLQADFKISEECIAQWK 148
>pdb|2J8K|A Chain A, Structure Of The Fusion Of Np275 And Np276, Pentapeptide
Repeat Proteins From Nostoc Punctiforme
Length = 201
Score = 30.0 bits (66), Expect = 6.2, Method: Composition-based stats.
Identities = 23/103 (22%), Positives = 44/103 (42%), Gaps = 5/103 (4%)
Query: 790 SDIEGTGQKSSDLQDTAQKSSDLEGTARKSSDLEGTARKSSDLEGTARKSNDLEQSAQKS 849
++++ +DL +DL G +DL ++ LEG L Q+ K+
Sbjct: 65 ANLQQANLSRADLSGATLNGADLRGANLSKADLSDAILDNAILEGAILDEAVLNQANLKA 124
Query: 850 SDLEGTAQ-----KSSDLQGTAQKSSDLDGTARKSSDLDRYNI 887
++LE + +DL +++DL G +DL + N+
Sbjct: 125 ANLEQAILSHANIREADLSEANLEAADLSGADLAIADLHQANL 167
Score = 30.0 bits (66), Expect = 6.6, Method: Composition-based stats.
Identities = 24/103 (23%), Positives = 44/103 (42%), Gaps = 5/103 (4%)
Query: 790 SDIEGTGQKSSDLQDTAQKSSDLEGTARKSSDLEGTARKSSDLEGTARKSNDLEQSAQ-- 847
+D+ G +DL+ +DL ++ LEG + L K+ +LEQ+
Sbjct: 75 ADLSGATLNGADLRGANLSKADLSDAILDNAILEGAILDEAVLNQANLKAANLEQAILSH 134
Query: 848 ---KSSDLEGTAQKSSDLQGTAQKSSDLDGTARKSSDLDRYNI 887
+ +DL +++DL G +DL + L+R N+
Sbjct: 135 ANIREADLSEANLEAADLSGADLAIADLHQANLHQAALERANL 177
>pdb|2GG4|A Chain A, Cp4 Epsp Synthase (Unliganded)
pdb|2GG6|A Chain A, Cp4 Epsp Synthase Liganded With S3p
pdb|2GGA|A Chain A, Cp4 Epsp Synthase Liganded With S3p And Glyphosate
Length = 455
Score = 30.0 bits (66), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 865 TAQKSSDLDGTARKSSDLDRYNIGIEDFLFGSMSEEQTRM 904
TA+KSS L GT R D +I F+FG ++ +TR+
Sbjct: 11 TARKSSGLSGTVRIPGD---KSISHRSFMFGGLASGETRI 47
>pdb|2PQD|A Chain A, A100g Cp4 Epsps Liganded With (R)-Difluoromethyl
Tetrahedral Reaction Intermediate Analog
Length = 445
Score = 30.0 bits (66), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 865 TAQKSSDLDGTARKSSDLDRYNIGIEDFLFGSMSEEQTRM 904
TA+KSS L GT R D +I F+FG ++ +TR+
Sbjct: 6 TARKSSGLSGTVRIPGD---KSISHRSFMFGGLASGETRI 42
>pdb|2PQB|A Chain A, Cp4 Epsps Liganded With (R)-Difluoromethyl Tetrahedral
Intermediate Analog
pdb|2PQC|A Chain A, Cp4 Epsps Liganded With (R)-Phosphonate Tetrahedral
Reaction Intermediate Analog
Length = 445
Score = 30.0 bits (66), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 865 TAQKSSDLDGTARKSSDLDRYNIGIEDFLFGSMSEEQTRM 904
TA+KSS L GT R D +I F+FG ++ +TR+
Sbjct: 6 TARKSSGLSGTVRIPGD---KSISHRSFMFGGLASGETRI 42
>pdb|2GGD|A Chain A, Cp4 Epsp Synthase Ala100gly Liganded With S3p And
Glyphosate
Length = 455
Score = 30.0 bits (66), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 865 TAQKSSDLDGTARKSSDLDRYNIGIEDFLFGSMSEEQTRM 904
TA+KSS L GT R D +I F+FG ++ +TR+
Sbjct: 11 TARKSSGLSGTVRIPGD---KSISHRSFMFGGLASGETRI 47
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
0.306 0.124 0.338
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,549,393
Number of Sequences: 62578
Number of extensions: 947962
Number of successful extensions: 1271
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 1229
Number of HSP's gapped (non-prelim): 75
length of query: 947
length of database: 14,973,337
effective HSP length: 108
effective length of query: 839
effective length of database: 8,214,913
effective search space: 6892312007
effective search space used: 6892312007
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 56 (26.2 bits)