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= psy305
(130 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3E08|A Chain A, H55s Mutant Xanthomonas Campestris Tryptophan 2,3-
Dioxygenase
pdb|3E08|B Chain B, H55s Mutant Xanthomonas Campestris Tryptophan 2,3-
Dioxygenase
pdb|3E08|C Chain C, H55s Mutant Xanthomonas Campestris Tryptophan 2,3-
Dioxygenase
pdb|3E08|D Chain D, H55s Mutant Xanthomonas Campestris Tryptophan 2,3-
Dioxygenase
pdb|3E08|E Chain E, H55s Mutant Xanthomonas Campestris Tryptophan 2,3-
Dioxygenase
pdb|3E08|F Chain F, H55s Mutant Xanthomonas Campestris Tryptophan 2,3-
Dioxygenase
pdb|3E08|G Chain G, H55s Mutant Xanthomonas Campestris Tryptophan 2,3-
Dioxygenase
pdb|3E08|H Chain H, H55s Mutant Xanthomonas Campestris Tryptophan 2,3-
Dioxygenase
Length = 298
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 34/88 (38%), Positives = 47/88 (53%), Gaps = 7/88 (7%)
Query: 7 LVDQVSILETMSPLDFMQFRDYLTPASGFQSLQFRLMENKLGLKSEHRVRYNQHYSNVFH 66
L +Q S+LET++P ++M FRD L P+SGFQSLQ+R +E LG K N VF
Sbjct: 98 LTEQWSVLETLTPSEYMGFRDVLGPSSGFQSLQYRYIEFLLGNK-------NPQMLQVFA 150
Query: 67 SNSEHLVALELSEQEPSLLNLVEKWLER 94
+ L + PSL ++L R
Sbjct: 151 YDPAGQARLREVLEAPSLYEEFLRYLAR 178
>pdb|3BK9|A Chain A, H55a Mutant Of Tryptophan 2,3-Dioxygenase From Xanthomonas
Campestris
pdb|3BK9|B Chain B, H55a Mutant Of Tryptophan 2,3-Dioxygenase From Xanthomonas
Campestris
pdb|3BK9|C Chain C, H55a Mutant Of Tryptophan 2,3-Dioxygenase From Xanthomonas
Campestris
pdb|3BK9|D Chain D, H55a Mutant Of Tryptophan 2,3-Dioxygenase From Xanthomonas
Campestris
pdb|3BK9|E Chain E, H55a Mutant Of Tryptophan 2,3-Dioxygenase From Xanthomonas
Campestris
pdb|3BK9|F Chain F, H55a Mutant Of Tryptophan 2,3-Dioxygenase From Xanthomonas
Campestris
pdb|3BK9|G Chain G, H55a Mutant Of Tryptophan 2,3-Dioxygenase From Xanthomonas
Campestris
pdb|3BK9|H Chain H, H55a Mutant Of Tryptophan 2,3-Dioxygenase From Xanthomonas
Campestris
Length = 306
Score = 53.9 bits (128), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 34/88 (38%), Positives = 47/88 (53%), Gaps = 7/88 (7%)
Query: 7 LVDQVSILETMSPLDFMQFRDYLTPASGFQSLQFRLMENKLGLKSEHRVRYNQHYSNVFH 66
L +Q S+LET++P ++M FRD L P+SGFQSLQ+R +E LG K N VF
Sbjct: 98 LTEQWSVLETLTPSEYMGFRDVLGPSSGFQSLQYRYIEFLLGNK-------NPQMLQVFA 150
Query: 67 SNSEHLVALELSEQEPSLLNLVEKWLER 94
+ L + PSL ++L R
Sbjct: 151 YDPAGQARLREVLEAPSLYEEFLRYLAR 178
>pdb|2NW7|A Chain A, Crystal Structure Of Tryptophan 2,3-Dioxygenase (Tdo) From
Xanthomonas Campestris In Complex With Ferric Heme.
Northeast Structural Genomics Target Xcr13
pdb|2NW7|B Chain B, Crystal Structure Of Tryptophan 2,3-Dioxygenase (Tdo) From
Xanthomonas Campestris In Complex With Ferric Heme.
Northeast Structural Genomics Target Xcr13
pdb|2NW7|C Chain C, Crystal Structure Of Tryptophan 2,3-Dioxygenase (Tdo) From
Xanthomonas Campestris In Complex With Ferric Heme.
Northeast Structural Genomics Target Xcr13
pdb|2NW7|D Chain D, Crystal Structure Of Tryptophan 2,3-Dioxygenase (Tdo) From
Xanthomonas Campestris In Complex With Ferric Heme.
Northeast Structural Genomics Target Xcr13
pdb|2NW9|A Chain A, Crystal Structure Of Tryptophan 2,3-Dioxygenase (Tdo) From
Xanthomonas Campestris In Complex With Ferrous Heme And
6-Fluoro-Tryptophan. Northeast Structural Genomics
Target Xcr13
pdb|2NW9|B Chain B, Crystal Structure Of Tryptophan 2,3-Dioxygenase (Tdo) From
Xanthomonas Campestris In Complex With Ferrous Heme And
6-Fluoro-Tryptophan. Northeast Structural Genomics
Target Xcr13
pdb|2NW8|A Chain A, Crystal Structure Of Tryptophan 2,3-Dioxygenase (Tdo) From
Xanthomonas Campestris In Complex With Ferrous Heme And
Tryptophan. Northeast Structural Genomics Target Xcr13.
pdb|2NW8|B Chain B, Crystal Structure Of Tryptophan 2,3-Dioxygenase (Tdo) From
Xanthomonas Campestris In Complex With Ferrous Heme And
Tryptophan. Northeast Structural Genomics Target Xcr13
Length = 306
Score = 53.9 bits (128), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/45 (55%), Positives = 35/45 (77%)
Query: 7 LVDQVSILETMSPLDFMQFRDYLTPASGFQSLQFRLMENKLGLKS 51
L +Q S+LET++P ++M FRD L P+SGFQSLQ+R +E LG K+
Sbjct: 98 LTEQWSVLETLTPSEYMGFRDVLGPSSGFQSLQYRYIEFLLGNKN 142
>pdb|1YW0|A Chain A, Crystal Structure Of The Tryptophan 2,3-Dioxygenase From
Xanthomonas Campestris. Northeast Structural Genomics
Target Xcr13.
pdb|1YW0|B Chain B, Crystal Structure Of The Tryptophan 2,3-Dioxygenase From
Xanthomonas Campestris. Northeast Structural Genomics
Target Xcr13.
pdb|1YW0|C Chain C, Crystal Structure Of The Tryptophan 2,3-Dioxygenase From
Xanthomonas Campestris. Northeast Structural Genomics
Target Xcr13.
pdb|1YW0|D Chain D, Crystal Structure Of The Tryptophan 2,3-Dioxygenase From
Xanthomonas Campestris. Northeast Structural Genomics
Target Xcr13
Length = 276
Score = 52.0 bits (123), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 24/45 (53%), Positives = 34/45 (75%)
Query: 7 LVDQVSILETMSPLDFMQFRDYLTPASGFQSLQFRLMENKLGLKS 51
L +Q S+LET++P ++ FRD L P+SGFQSLQ+R +E LG K+
Sbjct: 76 LTEQWSVLETLTPSEYXGFRDVLGPSSGFQSLQYRYIEFLLGNKN 120
>pdb|2NOX|A Chain A, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|B Chain B, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|C Chain C, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|D Chain D, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|E Chain E, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|F Chain F, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|G Chain G, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|H Chain H, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|I Chain I, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|J Chain J, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|K Chain K, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|L Chain L, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|M Chain M, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|N Chain N, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|O Chain O, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
pdb|2NOX|P Chain P, Crystal Structure Of Tryptophan 2,3-dioxygenase From
Ralstonia Metallidurans
Length = 281
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 43/80 (53%), Gaps = 7/80 (8%)
Query: 7 LVDQVSILETMSPLDFMQFRDYLTPASGFQSLQFRLMENKLGLKSEHRVRYNQHYSNVFH 66
LV ++L TM+P ++ R YL +SGFQS Q+R +E LG K+ +R + H
Sbjct: 97 LVQAWNVLATMTPPEYSAMRPYLGASSGFQSYQYREIEFILGNKNAAMLRPHAH------ 150
Query: 67 SNSEHLVALELSEQEPSLLN 86
EHL +E + PS+ +
Sbjct: 151 -RPEHLELVETALHTPSMYD 169
>pdb|1KFX|S Chain S, Crystal Structure Of Human M-Calpain Form I
pdb|1KFU|S Chain S, Crystal Structure Of Human M-Calpain Form Ii
Length = 184
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 10/54 (18%)
Query: 60 HYSNVFHSNSE----------HLVALELSEQEPSLLNLVEKWLERTPGLEKDGF 103
HYSN+ + SE L ++ L+N++ K + R P L+ DGF
Sbjct: 2 HYSNIEANESEEVRQFRRLFAQLAGDDMEVSATELMNILNKVVTRHPDLKTDGF 55
>pdb|1DVI|A Chain A, Calpain Domain Vi With Calcium Bound
pdb|1DVI|B Chain B, Calpain Domain Vi With Calcium Bound
Length = 184
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 10/54 (18%)
Query: 60 HYSNVFHSNSE----------HLVALELSEQEPSLLNLVEKWLERTPGLEKDGF 103
HYSN+ + SE L ++ L+N++ K + R P L+ DGF
Sbjct: 2 HYSNIEANESEEERQFRKLFVQLAGDDMEVSATELMNILNKVVTRHPDLKTDGF 55
>pdb|1DF0|B Chain B, Crystal Structure Of M-Calpain
pdb|1U5I|B Chain B, Crystal Structure Analysis Of Rat M-Calpain Mutant Lys10
Thr
pdb|3DF0|B Chain B, Calcium-Dependent Complex Between M-Calpain And
Calpastatin
pdb|3BOW|B Chain B, Structure Of M-Calpain In Complex With Calpastatin
Length = 184
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 10/54 (18%)
Query: 60 HYSNVFHSNSEH-------LVALELSEQEPS---LLNLVEKWLERTPGLEKDGF 103
HYSN+ + SE V L + E S L+N++ K + R P L+ DGF
Sbjct: 2 HYSNIEANESEEERQFRKLFVQLAGDDMEVSATELMNILNKVVTRHPDLKTDGF 55
>pdb|4E85|A Chain A, Crystal Structure Of Hat Domain Of Rna14
pdb|4E85|B Chain B, Crystal Structure Of Hat Domain Of Rna14
Length = 678
Score = 25.8 bits (55), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 26/111 (23%), Positives = 50/111 (45%), Gaps = 13/111 (11%)
Query: 3 SVQILVDQVSILETMSPL---DFMQFRDYLTPASGF---QSLQF------RLMENKLGLK 50
+ Q++VD+ +I E S +++ F ++ P + F Q +Q+ L+ +
Sbjct: 168 AFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQPMDCL 227
Query: 51 SEHRVRYNQHYSNVFHSNSEHLVALELSEQEPSLLNLVEKWLERTPGLEKD 101
RY Q +V + + ELS Q + +L + WL T GL+++
Sbjct: 228 ESMWQRYTQWEQDVNQLTARRHIG-ELSAQYMNARSLYQDWLNITKGLKRN 277
>pdb|4E6H|A Chain A, Crystal Structure Of The Hat Domain Of K. Lactis Rna14
Length = 679
Score = 25.4 bits (54), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 26/111 (23%), Positives = 50/111 (45%), Gaps = 13/111 (11%)
Query: 3 SVQILVDQVSILETMSPL---DFMQFRDYLTPASGF---QSLQF------RLMENKLGLK 50
+ Q++VD+ +I E S +++ F ++ P + F Q +Q+ L+ +
Sbjct: 169 AFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQPMDCL 228
Query: 51 SEHRVRYNQHYSNVFHSNSEHLVALELSEQEPSLLNLVEKWLERTPGLEKD 101
RY Q +V + + ELS Q + +L + WL T GL+++
Sbjct: 229 ESMWQRYTQWEQDVNQLTARRHIG-ELSAQYMNARSLYQDWLNITKGLKRN 278
>pdb|4EBA|A Chain A, Crystal Structure Of The Rna14-Rna15 Complex
pdb|4EBA|B Chain B, Crystal Structure Of The Rna14-Rna15 Complex
pdb|4EBA|C Chain C, Crystal Structure Of The Rna14-Rna15 Complex
pdb|4EBA|D Chain D, Crystal Structure Of The Rna14-Rna15 Complex
pdb|4EBA|E Chain E, Crystal Structure Of The Rna14-Rna15 Complex
pdb|4EBA|F Chain F, Crystal Structure Of The Rna14-Rna15 Complex
Length = 645
Score = 25.4 bits (54), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 26/111 (23%), Positives = 50/111 (45%), Gaps = 13/111 (11%)
Query: 3 SVQILVDQVSILETMSPL---DFMQFRDYLTPASGF---QSLQF------RLMENKLGLK 50
+ Q++VD+ +I E S +++ F ++ P + F Q +Q+ L+ +
Sbjct: 135 AFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQPMDCL 194
Query: 51 SEHRVRYNQHYSNVFHSNSEHLVALELSEQEPSLLNLVEKWLERTPGLEKD 101
RY Q +V + + ELS Q + +L + WL T GL+++
Sbjct: 195 ESMWQRYTQWEQDVNQLTARRHIG-ELSAQYMNARSLYQDWLNITKGLKRN 244
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
0.319 0.134 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,682,914
Number of Sequences: 62578
Number of extensions: 137050
Number of successful extensions: 436
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 425
Number of HSP's gapped (non-prelim): 21
length of query: 130
length of database: 14,973,337
effective HSP length: 88
effective length of query: 42
effective length of database: 9,466,473
effective search space: 397591866
effective search space used: 397591866
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)