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= psy9181
(262 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 30/40 (75%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
F S QL LEK F RTHYPD F REELA K+ L+EAR+QV
Sbjct: 6 FTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQV 45
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
Length = 60
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/40 (67%), Positives = 30/40 (75%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
F S QL LEK F RTHYPD F REELA K+ L+EAR+QV
Sbjct: 6 FTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQV 45
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Paired Box Protein Pax-6
Length = 80
Score = 58.9 bits (141), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 26/40 (65%), Positives = 29/40 (72%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
F Q+ ALEK FERTHYPD F RE LA K+ L EAR+QV
Sbjct: 14 FTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQV 53
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
Length = 61
Score = 58.5 bits (140), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 25/40 (62%), Positives = 31/40 (77%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
F + QL LE+ FERTHYPD + REELA++ L+EARVQV
Sbjct: 9 FTAEQLEELERAFERTHYPDIYTREELAQRAKLTEARVQV 48
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 57.4 bits (137), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 25/40 (62%), Positives = 32/40 (80%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
F S+QL LEKVF++THYPD + RE+LA + L+EARVQV
Sbjct: 16 FTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQV 55
>pdb|3A01|B Chain B, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
pdb|3A01|F Chain F, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
Length = 67
Score = 57.0 bits (136), Expect = 1e-08, Method: Composition-based stats.
Identities = 27/40 (67%), Positives = 30/40 (75%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
F S QL LEK F RTHYPD F REELA K+ L+EAR+QV
Sbjct: 13 FTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQV 52
>pdb|1FJL|A Chain A, Homeodomain From The Drosophila Paired Protein Bound To A
Dna Oligonucleotide
pdb|1FJL|B Chain B, Homeodomain From The Drosophila Paired Protein Bound To A
Dna Oligonucleotide
pdb|1FJL|C Chain C, Homeodomain From The Drosophila Paired Protein Bound To A
Dna Oligonucleotide
Length = 81
Score = 53.5 bits (127), Expect = 1e-07, Method: Composition-based stats.
Identities = 23/40 (57%), Positives = 32/40 (80%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
F++ QL+ LE+ FERT YPD + REELA++ L+EAR+QV
Sbjct: 25 FSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQV 64
>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Otx2
Length = 80
Score = 49.3 bits (116), Expect = 2e-06, Method: Composition-based stats.
Identities = 22/40 (55%), Positives = 29/40 (72%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
F QL+ LE +F +T YPD F+REE+A K+ L E+RVQV
Sbjct: 14 FTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQV 53
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/40 (52%), Positives = 27/40 (67%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
F QL ALE +F+ T YPD RE+LA+KV L E +V+V
Sbjct: 14 FTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEV 53
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/40 (55%), Positives = 26/40 (65%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
F S QL LE F+R HYPD REE+A L+EARV+V
Sbjct: 10 FTSQQLQELEATFQRNHYPDMSTREEIAVWTNLTEARVRV 49
>pdb|2L7F|P Chain P, Solution Structure Of The Pitx2 Homeodomain
pdb|2LKX|A Chain A, Nmr Structure Of The Homeodomain Of Pitx2 In Complex With
A Taatcc Dna Binding Site
Length = 68
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 21/40 (52%), Positives = 25/40 (62%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
F S QL LE F+R YPD REE+A L+EARV+V
Sbjct: 10 FTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRV 49
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 31.6 bits (70), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
F HQL ++ F H PDA ++LA+K L++ +QV
Sbjct: 14 FKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQV 53
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant R31lE42L
Length = 67
Score = 31.2 bits (69), Expect = 0.53, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
F +Q+ LE VF YP + E+LA+K+ L R+Q+
Sbjct: 8 FTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQI 47
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 29.6 bits (65), Expect = 1.5, Method: Composition-based stats.
Identities = 14/40 (35%), Positives = 26/40 (65%)
Query: 159 FNSHQLNALEKVFERTHYPDAFVREELAKKVCLSEARVQV 198
++S QL AL++ F++T Y R ELA + L++ +V++
Sbjct: 14 YSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKI 53
>pdb|1NRZ|A Chain A, Crystal Structure Of The Iibsor Domain Of The Sorbose
Permease From Klebsiella Pneumoniae Solved To 1.75a
Resolution
pdb|1NRZ|B Chain B, Crystal Structure Of The Iibsor Domain Of The Sorbose
Permease From Klebsiella Pneumoniae Solved To 1.75a
Resolution
pdb|1NRZ|C Chain C, Crystal Structure Of The Iibsor Domain Of The Sorbose
Permease From Klebsiella Pneumoniae Solved To 1.75a
Resolution
pdb|1NRZ|D Chain D, Crystal Structure Of The Iibsor Domain Of The Sorbose
Permease From Klebsiella Pneumoniae Solved To 1.75a
Resolution
Length = 164
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 213 VAEYKNPQFQSENRYFIKPQQHEIINM 239
VA Y NPQ+Q E +++ H+++ M
Sbjct: 66 VAVYHNPQYQDETVFYLFTNPHDVLTM 92
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
0.321 0.133 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,473,181
Number of Sequences: 62578
Number of extensions: 211782
Number of successful extensions: 440
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 425
Number of HSP's gapped (non-prelim): 16
length of query: 262
length of database: 14,973,337
effective HSP length: 97
effective length of query: 165
effective length of database: 8,903,271
effective search space: 1469039715
effective search space used: 1469039715
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)