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= psy4082
(86 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2RGT|A Chain A, Crystal Structure Of Lhx3 Lim Domains 1 And 2 With The
Binding Domain Of Isl1
pdb|2RGT|B Chain B, Crystal Structure Of Lhx3 Lim Domains 1 And 2 With The
Binding Domain Of Isl1
Length = 169
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 18/28 (64%), Positives = 21/28 (75%)
Query: 52 PMVASSPVRHDSPIGMNALEVTSYQPPW 79
PMVA+SP RHD + N +EV SYQPPW
Sbjct: 142 PMVAASPERHDGGLQANPVEVQSYQPPW 169
>pdb|3MMK|A Chain A, The Structural Basis For Partial Redundancy In A Class Of
Transcription Factors, The Lim-Homeodomain Proteins, In
Neural Cell Type Specification
pdb|3MMK|B Chain B, The Structural Basis For Partial Redundancy In A Class Of
Transcription Factors, The Lim-Homeodomain Proteins, In
Neural Cell Type Specification
Length = 169
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 14/28 (50%), Positives = 22/28 (78%)
Query: 52 PMVASSPVRHDSPIGMNALEVTSYQPPW 79
P+VA SP+ H++ + +A+EV +YQPPW
Sbjct: 142 PLVAGSPIGHENAVQGSAVEVQTYQPPW 169
>pdb|3HYL|A Chain A, Crystal Structure Of Transketolase From Bacillus Anthracis
pdb|3HYL|B Chain B, Crystal Structure Of Transketolase From Bacillus Anthracis
pdb|3M49|A Chain A, Crystal Structure Of Transketolase Complexed With Thiamine
Diphosphate From Bacillus Anthracis
pdb|3M49|B Chain B, Crystal Structure Of Transketolase Complexed With Thiamine
Diphosphate From Bacillus Anthracis
Length = 690
Score = 26.6 bits (57), Expect = 4.0, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 20/43 (46%), Gaps = 4/43 (9%)
Query: 43 MGYGSMQGIPMVASSPVRHDSPIGMNALEVTSYQPPWKALSDF 85
+G+GS P + H SP+G+ ++T W A DF
Sbjct: 273 IGFGS----PNKSGKSASHGSPLGVEETKLTKEAYAWTAEQDF 311
>pdb|1O94|C Chain C, Ternary Complex Between Trimethylamine Dehydrogenase And
Electron Transferring Flavoprotein
pdb|1O94|E Chain E, Ternary Complex Between Trimethylamine Dehydrogenase And
Electron Transferring Flavoprotein
pdb|1O95|C Chain C, Ternary Complex Between Trimethylamine Dehydrogenase And
Electron Transferring Flavoprotein
pdb|1O95|E Chain E, Ternary Complex Between Trimethylamine Dehydrogenase And
Electron Transferring Flavoprotein
pdb|1O96|A Chain A, Structure Of Electron Transferring Flavoprotein For
Methylophilus Methylotrophus.
pdb|1O96|C Chain C, Structure Of Electron Transferring Flavoprotein For
Methylophilus Methylotrophus.
pdb|1O96|E Chain E, Structure Of Electron Transferring Flavoprotein For
Methylophilus Methylotrophus.
pdb|1O96|Q Chain Q, Structure Of Electron Transferring Flavoprotein For
Methylophilus Methylotrophus.
pdb|1O97|C Chain C, Structure Of Electron Transferring Flavoprotein From
Methylophilus Methylotrophus, Recognition Loop Removed
By Limited Proteolysis
pdb|3CLR|C Chain C, Crystal Structure Of The R236a Etf Mutant From M.
Methylotrophus
pdb|3CLS|C Chain C, Crystal Structure Of The R236c Mutant Of Etf From
Methylophilus Methylotrophus
pdb|3CLT|C Chain C, Crystal Structure Of The R236e Mutant Of Methylophilus
Methylotrophus Etf
pdb|3CLU|C Chain C, Crystal Structure Of The R236k Mutant From Methylophilus
Methylotrophus Etf
Length = 264
Score = 26.2 bits (56), Expect = 5.1, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 4/55 (7%)
Query: 24 IMVNAPLRTLLFISMDGRKMGYGSMQGIPMVASSPVRHDS--PIGMNALEVTSYQ 76
+ +N P +L I + K Y S++GI A+ P+ S IG++A +V + Q
Sbjct: 172 VEINCP--AVLTIQLGINKPRYASLRGIKQAATKPIEEVSLADIGLSANDVGAAQ 224
>pdb|2WSK|A Chain A, Crystal Structure Of Glycogen Debranching Enzyme Glgx From
Escherichia Coli K-12
Length = 657
Score = 25.0 bits (53), Expect = 9.8, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 35/83 (42%), Gaps = 12/83 (14%)
Query: 5 GYYQLLWHRVSVHFLARVGIMVNAPLRTLLFISMDG-RKMGYGSMQGIPMVASSPVRHDS 63
G Y+ L H V +++L ++GI L F S ++MG + G +
Sbjct: 174 GTYKALGHPVMINYLKQLGITALELLPVAQFASEPRLQRMGLSNYWGY-----------N 222
Query: 64 PIGMNALEVTSYQPPWKALSDFR 86
P+ M AL P AL +FR
Sbjct: 223 PVAMFALHPAYACSPETALDEFR 245
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 0.137 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,453,297
Number of Sequences: 62578
Number of extensions: 77234
Number of successful extensions: 170
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 165
Number of HSP's gapped (non-prelim): 7
length of query: 86
length of database: 14,973,337
effective HSP length: 54
effective length of query: 32
effective length of database: 11,594,125
effective search space: 371012000
effective search space used: 371012000
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 45 (21.9 bits)