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= psy10639
(189 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1RGO|A Chain A, Structural Basis For Recognition Of The Mrna Class Ii Au-
Rich Element By The Tandem Zinc Finger Domain Of Tis11d
Length = 70
Score = 78.2 bits (191), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 37/67 (55%), Positives = 43/67 (64%)
Query: 49 IRYKTELCRSLEGYRPCQYGERCRFAHSVEELRPPVRHYRYRTRLCRNYHHNGVCNYGTR 108
RYKTELCR E C+YGE+C+FAH ELR RH +Y+T LCR +H G C YG R
Sbjct: 2 TRYKTELCRPFEESGTCKYGEKCQFAHGFHELRSLTRHPKYKTELCRTFHTIGFCPYGPR 61
Query: 109 CSFIHRV 115
C FIH
Sbjct: 62 CHFIHNA 68
Score = 34.3 bits (77), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 19/30 (63%)
Query: 50 RYKTELCRSLEGYRPCQYGERCRFAHSVEE 79
+YKTELCR+ C YG RC F H+ +E
Sbjct: 41 KYKTELCRTFHTIGFCPYGPRCHFIHNADE 70
>pdb|1M9O|A Chain A, Nmr Structure Of The First Zinc Binding Domain Of
Nup475TTPTIS11
Length = 77
Score = 69.7 bits (169), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 33/69 (47%), Positives = 43/69 (62%)
Query: 45 LLDPIRYKTELCRSLEGYRPCQYGERCRFAHSVEELRPPVRHYRYRTRLCRNYHHNGVCN 104
+ RYKTELCR+ C+YG +C+FAH + ELR RH +Y+T LC + G C
Sbjct: 4 MTTSSRYKTELCRTYSESGRCRYGAKCQFAHGLGELRQANRHPKYKTELCHKFKLQGRCP 63
Query: 105 YGTRCSFIH 113
YG+RC FIH
Sbjct: 64 YGSRCHFIH 72
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 17/30 (56%)
Query: 50 RYKTELCRSLEGYRPCQYGERCRFAHSVEE 79
+YKTELC + C YG RC F H+ E
Sbjct: 47 KYKTELCHKFKLQGRCPYGSRCHFIHNPTE 76
>pdb|2FC6|A Chain A, Solution Structure Of The Zf-Ccch Domain Of Target Of
Egr1, Member 1 (Nuclear)
Length = 50
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 17/38 (44%)
Query: 82 PPVRHYRYRTRLCRNYHHNGVCNYGTRCSFIHRVPGEE 119
PP H + T +C N+ G C G +C H + G
Sbjct: 11 PPATHRPHPTSICDNFSAYGWCPLGPQCPQSHDISGPS 48
>pdb|2FKP|A Chain A, The Mutant G127c-T313c Of Deinococcus Radiodurans N-
Acylamino Acid Racemase
pdb|2FKP|B Chain B, The Mutant G127c-T313c Of Deinococcus Radiodurans N-
Acylamino Acid Racemase
pdb|2FKP|C Chain C, The Mutant G127c-T313c Of Deinococcus Radiodurans N-
Acylamino Acid Racemase
pdb|2FKP|D Chain D, The Mutant G127c-T313c Of Deinococcus Radiodurans N-
Acylamino Acid Racemase
Length = 375
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 116 PGEEVDPVKKYREIHGDIQETRDIPGAATRGDRSRI 151
PG +V PV+ RE DI+ T D A T D R+
Sbjct: 173 PGWDVQPVRATREAFPDIRLTVDANSAYTLADAGRL 208
>pdb|2GGG|A Chain A, The Mutant A68c-D72c Of Deinococcus Radiodurans
N-Acylamino Acid Racemase
pdb|2GGG|B Chain B, The Mutant A68c-D72c Of Deinococcus Radiodurans
N-Acylamino Acid Racemase
pdb|2GGG|C Chain C, The Mutant A68c-D72c Of Deinococcus Radiodurans
N-Acylamino Acid Racemase
pdb|2GGG|D Chain D, The Mutant A68c-D72c Of Deinococcus Radiodurans
N-Acylamino Acid Racemase
pdb|2GGH|A Chain A, The Mutant A68c-D72c-Nlq Of Deinococcus Radiodurans
Nacylamino Acid Racemase
pdb|2GGH|B Chain B, The Mutant A68c-D72c-Nlq Of Deinococcus Radiodurans
Nacylamino Acid Racemase
pdb|2GGH|C Chain C, The Mutant A68c-D72c-Nlq Of Deinococcus Radiodurans
Nacylamino Acid Racemase
pdb|2GGH|D Chain D, The Mutant A68c-D72c-Nlq Of Deinococcus Radiodurans
Nacylamino Acid Racemase
Length = 375
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 116 PGEEVDPVKKYREIHGDIQETRDIPGAATRGDRSRI 151
PG +V PV+ RE DI+ T D A T D R+
Sbjct: 173 PGWDVQPVRATREAFPDIRLTVDANSAYTLADAGRL 208
>pdb|1R0M|A Chain A, Structure Of Deinococcus Radiodurans N-Acylamino Acid
Racemase At 1.3 : Insights Into A Flexible Binding
Pocket And Evolution Of Enzymatic Activity
pdb|1R0M|B Chain B, Structure Of Deinococcus Radiodurans N-Acylamino Acid
Racemase At 1.3 : Insights Into A Flexible Binding
Pocket And Evolution Of Enzymatic Activity
pdb|1R0M|C Chain C, Structure Of Deinococcus Radiodurans N-Acylamino Acid
Racemase At 1.3 : Insights Into A Flexible Binding
Pocket And Evolution Of Enzymatic Activity
pdb|1R0M|D Chain D, Structure Of Deinococcus Radiodurans N-Acylamino Acid
Racemase At 1.3 : Insights Into A Flexible Binding
Pocket And Evolution Of Enzymatic Activity
pdb|1XPY|A Chain A, Structural Basis For Catalytic Racemization And Substrate
Specificity Of An N-Acylamino Acid Racemase Homologue
From Deinococcus Radiodurans
pdb|1XPY|B Chain B, Structural Basis For Catalytic Racemization And Substrate
Specificity Of An N-Acylamino Acid Racemase Homologue
From Deinococcus Radiodurans
pdb|1XPY|C Chain C, Structural Basis For Catalytic Racemization And Substrate
Specificity Of An N-Acylamino Acid Racemase Homologue
From Deinococcus Radiodurans
pdb|1XPY|D Chain D, Structural Basis For Catalytic Racemization And Substrate
Specificity Of An N-Acylamino Acid Racemase Homologue
From Deinococcus Radiodurans
pdb|1XS2|A Chain A, Structural Basis For Catalytic Racemization And Substrate
Specificity Of An N-Acylamino Acid Racemase Homologue
From Deinococcus Radiodurans
pdb|1XS2|B Chain B, Structural Basis For Catalytic Racemization And Substrate
Specificity Of An N-Acylamino Acid Racemase Homologue
From Deinococcus Radiodurans
pdb|1XS2|C Chain C, Structural Basis For Catalytic Racemization And Substrate
Specificity Of An N-Acylamino Acid Racemase Homologue
From Deinococcus Radiodurans
pdb|1XS2|D Chain D, Structural Basis For Catalytic Racemization And Substrate
Specificity Of An N-Acylamino Acid Racemase Homologue
From Deinococcus Radiodurans
Length = 375
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 116 PGEEVDPVKKYREIHGDIQETRDIPGAATRGDRSRI 151
PG +V PV+ RE DI+ T D A T D R+
Sbjct: 173 PGWDVQPVRATREAFPDIRLTVDANSAYTLADAGRL 208
>pdb|2GGJ|A Chain A, The Mutant Y218c Of Deinococcus Radiodurans N-Acylamino
Acid Racemase
pdb|2GGJ|B Chain B, The Mutant Y218c Of Deinococcus Radiodurans N-Acylamino
Acid Racemase
pdb|2GGJ|C Chain C, The Mutant Y218c Of Deinococcus Radiodurans N-Acylamino
Acid Racemase
pdb|2GGJ|D Chain D, The Mutant Y218c Of Deinococcus Radiodurans N-Acylamino
Acid Racemase
Length = 375
Score = 27.7 bits (60), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%)
Query: 116 PGEEVDPVKKYREIHGDIQETRDIPGAATRGDRSRI 151
PG +V PV+ RE DI+ T D A T D R+
Sbjct: 173 PGWDVQPVRATREAFPDIRLTVDANSAYTLADAGRL 208
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 27.7 bits (60), Expect = 4.5, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%), Gaps = 4/37 (10%)
Query: 6 NWRHPARFRLDQKCQQEFHDRGPE----DIHRPIYPY 38
N+ P RF +DQ+ E D E D+HR I P+
Sbjct: 418 NFLMPGRFTIDQEIDFENQDEEQEEYIHDLHRRIQPF 454
>pdb|3U1L|A Chain A, Structure Of The Mrna Splicing Complex Component Cwc2
pdb|3U1M|A Chain A, Structure Of The Mrna Splicing Complex Component Cwc2
Length = 240
Score = 26.6 bits (57), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 97 YHHNGVCNYGTRCSFIHRVPGEE 119
+ G+C G +C ++H +P EE
Sbjct: 75 FFAKGMCCLGPKCEYLHHIPDEE 97
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
0.326 0.142 0.472
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,520,840
Number of Sequences: 62578
Number of extensions: 207976
Number of successful extensions: 459
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 440
Number of HSP's gapped (non-prelim): 20
length of query: 189
length of database: 14,973,337
effective HSP length: 93
effective length of query: 96
effective length of database: 9,153,583
effective search space: 878743968
effective search space used: 878743968
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 48 (23.1 bits)