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= psy12003
(61 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2R5Y|A Chain A, Structure Of ScrEXD COMPLEX BOUND TO A CONSENSUS HOX-Exd
Site
pdb|2R5Z|A Chain A, Structure Of ScrEXD COMPLEX BOUND TO A DNA SEQUENCE
Derived From The Fkh Gene
Length = 88
Score = 47.0 bits (110), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/21 (100%), Positives = 21/21 (100%)
Query: 13 TERQIKIWFQNRRMKWKKEHK 33
TERQIKIWFQNRRMKWKKEHK
Sbjct: 68 TERQIKIWFQNRRMKWKKEHK 88
>pdb|1SAN|A Chain A, The Des(1-6)antennapedia Homeodomain: Comparison Of The
Nmr Solution Structure And The Dna Binding Affinity
With The Intact Antennapedia Homeodomain
Length = 62
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/21 (95%), Positives = 21/21 (100%)
Query: 13 TERQIKIWFQNRRMKWKKEHK 33
TERQIKIWFQNRRMKWKKE+K
Sbjct: 36 TERQIKIWFQNRRMKWKKENK 56
>pdb|1AHD|P Chain P, Determination Of The Nmr Solution Structure Of An
Antennapedia Homeodomain-Dna Complex
pdb|2HOA|A Chain A, Structure Determination Of The Antp(C39->s) Homeodomain
From Nuclear Magnetic Resonance Data In Solution Using
A Novel Strategy For The Structure Calculation With The
Programs Diana, Caliba, Habas And Glomsa
Length = 68
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/21 (95%), Positives = 21/21 (100%)
Query: 13 TERQIKIWFQNRRMKWKKEHK 33
TERQIKIWFQNRRMKWKKE+K
Sbjct: 42 TERQIKIWFQNRRMKWKKENK 62
>pdb|1HOM|A Chain A, Determination Of The Three-Dimensional Structure Of The
Antennapedia Homeodomain From Drosophila In Solution By
1h Nuclear Magnetic Resonance Spectroscopy
Length = 68
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/21 (95%), Positives = 21/21 (100%)
Query: 13 TERQIKIWFQNRRMKWKKEHK 33
TERQIKIWFQNRRMKWKKE+K
Sbjct: 42 TERQIKIWFQNRRMKWKKENK 62
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 43.1 bits (100), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 19/19 (100%), Positives = 19/19 (100%)
Query: 13 TERQIKIWFQNRRMKWKKE 31
TERQIKIWFQNRRMKWKKE
Sbjct: 43 TERQIKIWFQNRRMKWKKE 61
>pdb|2H1K|A Chain A, Crystal Structure Of The Pdx1 Homeodomain In Complex
With Dna
pdb|2H1K|B Chain B, Crystal Structure Of The Pdx1 Homeodomain In Complex
With Dna
Length = 63
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/20 (90%), Positives = 18/20 (90%)
Query: 13 TERQIKIWFQNRRMKWKKEH 32
TER IKIWFQNRRMKWKKE
Sbjct: 43 TERHIKIWFQNRRMKWKKEE 62
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 81
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/19 (94%), Positives = 18/19 (94%)
Query: 13 TERQIKIWFQNRRMKWKKE 31
TERQIKIWFQNRRMK KKE
Sbjct: 60 TERQIKIWFQNRRMKLKKE 78
>pdb|1FTZ|A Chain A, Nuclear Magnetic Resonance Solution Structure Of The
Fushi Tarazu Homeodomain From Drosophila And Comparison
With The Antennapedia Homeodomain
Length = 70
Score = 38.9 bits (89), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 17/24 (70%), Positives = 20/24 (83%)
Query: 13 TERQIKIWFQNRRMKWKKEHKMAS 36
+ERQIKIWFQNRRMK KK+ + S
Sbjct: 43 SERQIKIWFQNRRMKSKKDRTLDS 66
>pdb|2LP0|A Chain A, The Solution Structure Of Homeodomain-Protein Complex
Length = 60
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/18 (88%), Positives = 17/18 (94%)
Query: 13 TERQIKIWFQNRRMKWKK 30
TERQ+KIWFQNRRMK KK
Sbjct: 41 TERQVKIWFQNRRMKMKK 58
>pdb|1PUF|A Chain A, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound
To Dna
Length = 77
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/21 (80%), Positives = 19/21 (90%)
Query: 13 TERQIKIWFQNRRMKWKKEHK 33
TERQ+KIWFQNRRMK KK +K
Sbjct: 53 TERQVKIWFQNRRMKMKKINK 73
>pdb|2NZZ|A Chain A, Nmr Structure Analysis Of The Penetratin Conjugated Gas
(374-394) Peptide
pdb|2O00|A Chain A, Nmr Structure Analysis Of The Penetratin Conjugated Gas
(374-394) Peptide
Length = 37
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/16 (100%), Positives = 16/16 (100%)
Query: 15 RQIKIWFQNRRMKWKK 30
RQIKIWFQNRRMKWKK
Sbjct: 1 RQIKIWFQNRRMKWKK 16
>pdb|1KZ0|A Chain A, Solution Structure Of The Third Helix Of Antennapedia
Homeodomain
Length = 16
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/16 (100%), Positives = 16/16 (100%)
Query: 15 RQIKIWFQNRRMKWKK 30
RQIKIWFQNRRMKWKK
Sbjct: 1 RQIKIWFQNRRMKWKK 16
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
Length = 60
Score = 35.0 bits (79), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 19/22 (86%)
Query: 13 TERQIKIWFQNRRMKWKKEHKM 34
TE +I++WFQNRR KW+K+ K+
Sbjct: 39 TEARIQVWFQNRRAKWRKQEKV 60
>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 = 35.0 bits (79), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 19/22 (86%)
Query: 13 TERQIKIWFQNRRMKWKKEHKM 34
TE +I++WFQNRR KW+K+ K+
Sbjct: 46 TEARIQVWFQNRRAKWRKQEKV 67
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 13 TERQIKIWFQNRRMKWKKEHKMASM 37
TE ++++WFQNRR KW+K + M
Sbjct: 49 TEARVQVWFQNRRAKWRKRERFGQM 73
>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor
Gbx1 From Homo Sapiens
Length = 71
Score = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 13/18 (72%), Positives = 16/18 (88%)
Query: 13 TERQIKIWFQNRRMKWKK 30
+E Q+KIWFQNRR KWK+
Sbjct: 47 SEVQVKIWFQNRRAKWKR 64
>pdb|1OMQ|A Chain A, Structure Of Penetratin In Bicellar Solution
Length = 16
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 15/15 (100%), Positives = 15/15 (100%)
Query: 16 QIKIWFQNRRMKWKK 30
QIKIWFQNRRMKWKK
Sbjct: 2 QIKIWFQNRRMKWKK 16
>pdb|2E1O|A Chain A, Solution Structure Of Rsgi Ruh-028, A Homeobox Domain
From Human Cdna
Length = 70
Score = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 12/18 (66%), Positives = 16/18 (88%)
Query: 13 TERQIKIWFQNRRMKWKK 30
+ERQ+K WFQNRR KW++
Sbjct: 47 SERQVKTWFQNRRAKWRR 64
>pdb|2CRA|A Chain A, Solution Structure Of The Homeobox Domain Of Human Homeo
Box B13
Length = 70
Score = 33.5 bits (75), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 14/18 (77%), Positives = 16/18 (88%)
Query: 13 TERQIKIWFQNRRMKWKK 30
+ERQI IWFQNRR+K KK
Sbjct: 47 SERQITIWFQNRRVKEKK 64
>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 97
Score = 33.1 bits (74), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 14/20 (70%), Positives = 16/20 (80%)
Query: 14 ERQIKIWFQNRRMKWKKEHK 33
E Q+KIWFQNRRMK KK +
Sbjct: 75 ETQVKIWFQNRRMKQKKRER 94
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 33.1 bits (74), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 17/20 (85%)
Query: 13 TERQIKIWFQNRRMKWKKEH 32
TE +I++WFQNRR KW+K+
Sbjct: 39 TEARIQVWFQNRRAKWRKQE 58
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Paired Box Protein Pax-6
Length = 80
Score = 33.1 bits (74), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 17/21 (80%)
Query: 14 ERQIKIWFQNRRMKWKKEHKM 34
E +I++WF NRR KW++E K+
Sbjct: 48 EARIQVWFSNRRAKWRREEKL 68
>pdb|3A03|A Chain A, Crystal Structure Of Hox11l1 Homeodomain
Length = 56
Score = 33.1 bits (74), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 17/21 (80%)
Query: 11 RGTERQIKIWFQNRRMKWKKE 31
R T+ Q+K WFQNRR KW+++
Sbjct: 35 RMTDAQVKTWFQNRRTKWRRQ 55
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Barh-Like 1
Length = 80
Score = 32.7 bits (73), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 12/15 (80%), Positives = 14/15 (93%)
Query: 16 QIKIWFQNRRMKWKK 30
Q+K W+QNRRMKWKK
Sbjct: 60 QVKTWYQNRRMKWKK 74
>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 = 32.3 bits (72), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 13 TERQIKIWFQNRRMKWKKEHKMAS 36
TE +I++WFQNRR + +K+H S
Sbjct: 58 TEARIQVWFQNRRARLRKQHTSVS 81
>pdb|2L7Z|A Chain A, Nmr Structure Of A13 Homedomain
Length = 73
Score = 32.3 bits (72), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 13/18 (72%), Positives = 16/18 (88%)
Query: 13 TERQIKIWFQNRRMKWKK 30
+ERQ+ IWFQNRR+K KK
Sbjct: 47 SERQVTIWFQNRRVKEKK 64
>pdb|2LD5|A Chain A, Solution Nmr-Derived Complex Structure Of Hoxa13 Dna
Binding Domain Bound To Dna
Length = 67
Score = 32.0 bits (71), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 13/18 (72%), Positives = 16/18 (88%)
Query: 13 TERQIKIWFQNRRMKWKK 30
+ERQ+ IWFQNRR+K KK
Sbjct: 41 SERQVTIWFQNRRVKEKK 58
>pdb|3A01|A Chain A, Crystal Structure Of Aristaless And Clawless
Homeodomains Bo
pdb|3A01|E Chain E, Crystal Structure Of Aristaless And Clawless
Homeodomains Bo
Length = 93
Score = 32.0 bits (71), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 16/19 (84%)
Query: 13 TERQIKIWFQNRRMKWKKE 31
T+ Q+K WFQNRR KW+++
Sbjct: 57 TDAQVKTWFQNRRTKWRRQ 75
>pdb|1IG7|A Chain A, Msx-1 HomeodomainDNA COMPLEX STRUCTURE
Length = 58
Score = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 13/18 (72%), Positives = 15/18 (83%)
Query: 13 TERQIKIWFQNRRMKWKK 30
TE Q+KIWFQNRR K K+
Sbjct: 40 TETQVKIWFQNRRAKAKR 57
>pdb|1KZ2|A Chain A, Solution Structure Of The Third Helix Of Antennapedia
Homeodomain Derivative [w6f,W14f]
Length = 16
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 14/16 (87%), Positives = 16/16 (100%)
Query: 15 RQIKIWFQNRRMKWKK 30
RQIKI+FQNRRMK+KK
Sbjct: 1 RQIKIFFQNRRMKFKK 16
>pdb|2L9R|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Homeobox
Protein Nkx-3.1 From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6470a
Length = 69
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/20 (65%), Positives = 16/20 (80%)
Query: 13 TERQIKIWFQNRRMKWKKEH 32
TE Q+KIWFQNRR K K++
Sbjct: 44 TETQVKIWFQNRRYKTKRKQ 63
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 15/19 (78%)
Query: 13 TERQIKIWFQNRRMKWKKE 31
T+ Q+KIWFQN+R K KK
Sbjct: 47 TQTQVKIWFQNKRSKIKKS 65
>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 = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 17/22 (77%)
Query: 13 TERQIKIWFQNRRMKWKKEHKM 34
TE ++++WF+NRR KW+K +
Sbjct: 43 TEARVRVWFKNRRAKWRKREEF 64
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 17/22 (77%)
Query: 13 TERQIKIWFQNRRMKWKKEHKM 34
TE ++++WF+NRR KW+K +
Sbjct: 43 TEARVRVWFKNRRAKWRKREEF 64
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant
R31lE42L
Length = 67
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 15/18 (83%)
Query: 16 QIKIWFQNRRMKWKKEHK 33
+I+IWFQNRR K K+ H+
Sbjct: 44 RIQIWFQNRRAKLKRSHR 61
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
Length = 61
Score = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 16/19 (84%)
Query: 13 TERQIKIWFQNRRMKWKKE 31
TE ++++WF NRR +W+K+
Sbjct: 42 TEARVQVWFSNRRARWRKQ 60
>pdb|3HDD|A Chain A, Engrailed Homeodomain Dna Complex
pdb|3HDD|B Chain B, Engrailed Homeodomain Dna Complex
Length = 60
Score = 29.3 bits (64), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 13/17 (76%), Positives = 14/17 (82%)
Query: 14 ERQIKIWFQNRRMKWKK 30
E QIKIWFQN+R K KK
Sbjct: 42 EAQIKIWFQNKRAKIKK 58
>pdb|1HDD|C Chain C, Crystal Structure Of An Engrailed Homeodomain-Dna
Complex At 2.8 Angstroms Resolution: A Framework For
Understanding Homeodomain-Dna Interactions
pdb|1HDD|D Chain D, Crystal Structure Of An Engrailed Homeodomain-Dna
Complex At 2.8 Angstroms Resolution: A Framework For
Understanding Homeodomain-Dna Interactions
pdb|2JWT|A Chain A, Solution Structure Of Engrailed Homeodomain Wt
Length = 61
Score = 29.3 bits (64), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 13/17 (76%), Positives = 14/17 (82%)
Query: 14 ERQIKIWFQNRRMKWKK 30
E QIKIWFQN+R K KK
Sbjct: 44 EAQIKIWFQNKRAKIKK 60
>pdb|1JGG|A Chain A, Even-Skipped Homeodomain Complexed To At-Rich Dna
pdb|1JGG|B Chain B, Even-Skipped Homeodomain Complexed To At-Rich Dna
Length = 60
Score = 28.9 bits (63), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 15/19 (78%)
Query: 14 ERQIKIWFQNRRMKWKKEH 32
E IK+WFQNRRMK K++
Sbjct: 42 ESTIKVWFQNRRMKDKRQR 60
>pdb|2P81|A Chain A, Engrailed Homeodomain Helix-Turn-Helix Motif
Length = 44
Score = 28.9 bits (63), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 13/17 (76%), Positives = 14/17 (82%)
Query: 14 ERQIKIWFQNRRMKWKK 30
E QIKIWFQN+R K KK
Sbjct: 27 EAQIKIWFQNKRAKIKK 43
>pdb|3G40|A Chain A, Crystal Structure Of The Cytoplasmic Domain Of A
Prokaryotic Cation Chloride Cotransporter
Length = 294
Score = 28.9 bits (63), Expect = 0.73, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 3 LLRDKNPPRGTERQ--IKIWFQNRRMKWKKEHKMASMNV 39
LL K+P G RQ I +W +NR + W ++ +M++
Sbjct: 142 LLFSKHPQAGLGRQNLINLWIENRGLDWDISMELGNMDL 180
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 28.9 bits (63), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 8/17 (47%), Positives = 15/17 (88%)
Query: 14 ERQIKIWFQNRRMKWKK 30
E ++++WF+NRR KW++
Sbjct: 48 EEKVEVWFKNRRAKWRR 64
>pdb|1P7J|A Chain A, Crystal Structure Of Engrailed Homeodomain Mutant K52e
pdb|1P7J|B Chain B, Crystal Structure Of Engrailed Homeodomain Mutant K52e
pdb|1P7J|C Chain C, Crystal Structure Of Engrailed Homeodomain Mutant K52e
pdb|1P7J|D Chain D, Crystal Structure Of Engrailed Homeodomain Mutant K52e
Length = 59
Score = 28.5 bits (62), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 13/17 (76%), Positives = 13/17 (76%)
Query: 14 ERQIKIWFQNRRMKWKK 30
E QIKIWFQN R K KK
Sbjct: 42 EAQIKIWFQNERAKIKK 58
>pdb|1P7I|A Chain A, Crystal Structure Of Engrailed Homeodomain Mutant K52a
pdb|1P7I|B Chain B, Crystal Structure Of Engrailed Homeodomain Mutant K52a
pdb|1P7I|C Chain C, Crystal Structure Of Engrailed Homeodomain Mutant K52a
pdb|1P7I|D Chain D, Crystal Structure Of Engrailed Homeodomain Mutant K52a
Length = 59
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/17 (76%), Positives = 13/17 (76%)
Query: 14 ERQIKIWFQNRRMKWKK 30
E QIKIWFQN R K KK
Sbjct: 42 EAQIKIWFQNARAKIKK 58
>pdb|3RKQ|A Chain A, Nkx2.5 Homeodomain Dimer Bound To Anf-242 Dna
pdb|3RKQ|B Chain B, Nkx2.5 Homeodomain Dimer Bound To Anf-242 Dna
Length = 58
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/17 (70%), Positives = 13/17 (76%)
Query: 13 TERQIKIWFQNRRMKWK 29
T Q+KIWFQNRR K K
Sbjct: 42 TSTQVKIWFQNRRYKSK 58
>pdb|2HDD|A Chain A, Engrailed Homeodomain Q50k Variant Dna Complex
pdb|2HDD|B Chain B, Engrailed Homeodomain Q50k Variant Dna Complex
Length = 61
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/17 (70%), Positives = 14/17 (82%)
Query: 14 ERQIKIWFQNRRMKWKK 30
E QIKIWF+N+R K KK
Sbjct: 44 EAQIKIWFKNKRAKIKK 60
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
Length = 61
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/17 (64%), Positives = 14/17 (82%)
Query: 14 ERQIKIWFQNRRMKWKK 30
E QIKIWFQN+R K ++
Sbjct: 44 EAQIKIWFQNKRAKIRR 60
>pdb|1DU0|A Chain A, Engrailed Homeodomain Q50a Variant Dna Complex
pdb|1DU0|B Chain B, Engrailed Homeodomain Q50a Variant Dna Complex
Length = 57
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/17 (70%), Positives = 13/17 (76%)
Query: 14 ERQIKIWFQNRRMKWKK 30
E QIKIWF N+R K KK
Sbjct: 40 EAQIKIWFANKRAKIKK 56
>pdb|2VI6|A Chain A, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|B Chain B, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|C Chain C, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|D Chain D, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|E Chain E, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|F Chain F, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|G Chain G, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|H Chain H, Crystal Structure Of The Nanog Homeodomain
Length = 62
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 14/16 (87%)
Query: 15 RQIKIWFQNRRMKWKK 30
+Q+K WFQN+RMK K+
Sbjct: 45 KQVKTWFQNQRMKCKR 60
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
Length = 54
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 11/14 (78%), Positives = 12/14 (85%)
Query: 14 ERQIKIWFQNRRMK 27
E QIKIWFQN+R K
Sbjct: 40 EAQIKIWFQNKRAK 53
>pdb|2KT0|A Chain A, Solution Structure Of Human Stem Cell Transcription
Factor Nanog Homeodomain Fragment
Length = 84
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 14/16 (87%)
Query: 15 RQIKIWFQNRRMKWKK 30
+Q+K WFQN+RMK K+
Sbjct: 64 KQVKTWFQNQRMKSKR 79
>pdb|2JT9|B Chain B, Nmr Structure Of Immunosuppressory Peptide Containing
Cyclolinopeptide X And Antennapedia(43-58) Sequences
Length = 17
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/16 (81%), Positives = 13/16 (81%)
Query: 15 RQIKIWFQNRRMKWKK 30
RQIKI FQNRR K KK
Sbjct: 1 RQIKIXFQNRRXKXKK 16
>pdb|1BW5|A Chain A, The Nmr Solution Structure Of The Homeodomain Of The Rat
Insulin Gene Enhancer Protein Isl-1, 50 Structures
Length = 66
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 14/20 (70%)
Query: 15 RQIKIWFQNRRMKWKKEHKM 34
R I++WFQN+R K KK M
Sbjct: 45 RVIRVWFQNKRCKDKKRSIM 64
>pdb|1FTT|A Chain A, Thyroid Transcription Factor 1 Homeodomain (Rattus
Norvegicus)
Length = 68
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 16 QIKIWFQNRRMKWKKEHK 33
Q+KIWFQN R K K++ K
Sbjct: 45 QVKIWFQNHRYKMKRQAK 62
>pdb|1QRY|A Chain A, Homeobox Protein Vnd (Ventral Nervous System Defective
Protein)
Length = 80
Score = 25.8 bits (55), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 11 RGTERQIKIWFQNRRMKWKK 30
R T Q+KIWFQN R K K+
Sbjct: 50 RLTPTQVKIWFQNHRYKTKR 69
>pdb|1NK2|P Chain P, VndNK-2 HomeodomainDNA COMPLEX, NMR, 20 STRUCTURES
pdb|1NK3|P Chain P, VndNK-2 HomeodomainDNA COMPLEX, NMR, MINIMIZED AVERAGE
Structure
pdb|1VND|A Chain A, VndNK-2 Protein (Homeodomain), Nmr
Length = 77
Score = 25.4 bits (54), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 11 RGTERQIKIWFQNRRMKWKK 30
R T Q+KIWFQN R K K+
Sbjct: 47 RLTPTQVKIWFQNHRYKTKR 66
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 8/18 (44%), Positives = 15/18 (83%)
Query: 13 TERQIKIWFQNRRMKWKK 30
T+R +++WFQN R K+++
Sbjct: 47 TKRVLQVWFQNARAKFRR 64
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
0.322 0.134 0.445
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,223,584
Number of Sequences: 62578
Number of extensions: 69707
Number of successful extensions: 226
Number of sequences better than 100.0: 60
Number of HSP's better than 100.0 without gapping: 59
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 167
Number of HSP's gapped (non-prelim): 60
length of query: 61
length of database: 14,973,337
effective HSP length: 32
effective length of query: 29
effective length of database: 12,970,841
effective search space: 376154389
effective search space used: 376154389
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)