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= 045160
(166 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3K2A|A Chain A, Crystal Structure Of The Homeobox Domain Of Human Homeobox
Protein Meis2
pdb|3K2A|B Chain B, Crystal Structure Of The Homeobox Domain Of Human Homeobox
Protein Meis2
Length = 67
Score = 50.8 bits (120), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 23/44 (52%), Positives = 28/44 (63%)
Query: 103 WWNAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKRHWKP 146
W H PYP+E K QLA+ TGL Q+NNWFIN R+R +P
Sbjct: 16 WLFQHLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQP 59
>pdb|1X2N|A Chain A, Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Pknox1
Length = 73
Score = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/44 (47%), Positives = 26/44 (59%)
Query: 99 TLLDWWNAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKR 142
+ W H PYPTE +K Q+A T L Q+NNWFIN R+R
Sbjct: 21 VMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRR 64
>pdb|4EGC|A Chain A, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 559
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 31/45 (68%), Gaps = 2/45 (4%)
Query: 98 QTLLDWWNAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKR 142
+ +L W AH PYP+ +K +LAE+TGL Q++NWF N+R+R
Sbjct: 506 RGVLREWYAHN--PYPSPREKRELAEATGLTTTQVSNWFKNRRQR 548
>pdb|2DMN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Tgif2lx
Length = 83
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 27/45 (60%)
Query: 98 QTLLDWWNAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKR 142
+ L DW H YP+E +K L+E T L QI+NWFIN R+R
Sbjct: 20 KILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARRR 64
>pdb|1LFU|P Chain P, Nmr Solution Stucture Of The Extended Pbx Homeodomain
Bound To Dna
Length = 82
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 32/48 (66%)
Query: 98 QTLLDWWNAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKRHWK 145
+ L +++ +H PYP+E K +LA+ +G+ Q++NWF N+R R+ K
Sbjct: 15 EILNEYFYSHLSNPYPSEEAKEELAKKSGITVSQVSNWFGNKRIRYKK 62
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 31/48 (64%)
Query: 98 QTLLDWWNAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKRHWK 145
+ L +++ +H PYP+E K +LA+ G+ Q++NWF N+R R+ K
Sbjct: 14 EILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 61
>pdb|2LK2|A Chain A, Solution Nmr Structure Of Homeobox Domain (171-248) Of
Human Homeobox Protein Tgif1, Northeast Structural
Genomics Consortium Target Hr4411b
Length = 89
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 26/45 (57%)
Query: 98 QTLLDWWNAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKR 142
Q L DW H YP+E +K L++ T L Q+ NWFIN R+R
Sbjct: 18 QILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRR 62
>pdb|1DU6|A Chain A, Solution Structure Of The Truncated Pbx Homeodomain
Length = 64
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 31/48 (64%)
Query: 98 QTLLDWWNAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKRHWK 145
+ L +++ +H PYP+E K +LA+ G+ Q++NWF N+R R+ K
Sbjct: 16 EILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 63
>pdb|1PUF|B Chain B, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 73
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 31/48 (64%)
Query: 98 QTLLDWWNAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKRHWK 145
+ L +++ +H PYP+E K +LA+ G+ Q++NWF N+R R+ K
Sbjct: 14 EILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 61
>pdb|1B8I|B Chain B, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
pdb|2R5Y|B Chain B, Structure Of ScrEXD COMPLEX BOUND TO A CONSENSUS HOX-Exd
Site
pdb|2R5Z|B Chain B, Structure Of ScrEXD COMPLEX BOUND TO A DNA SEQUENCE
Derived From The Fkh Gene
Length = 63
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 30/48 (62%)
Query: 98 QTLLDWWNAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKRHWK 145
+ L +++ +H PYP+E K +LA G+ Q++NWF N+R R+ K
Sbjct: 14 EILNEYFYSHLSNPYPSEEAKEELARKCGITVSQVSNWFGNKRIRYKK 61
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Barh-Like 1
Length = 80
Score = 33.9 bits (76), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 109 KWPYPTEADKLQLAESTGLDQKQINNWFINQRKRHWKPS 147
K Y + D++ LAES GL Q Q+ W+ N+R + WK S
Sbjct: 38 KQKYLSTPDRIDLAESLGLSQLQVKTWYQNRRMK-WKKS 75
>pdb|2DMP|A Chain A, Solution Structure Of The Third Homeobox Domain Of Zinc
Fingers And Homeoboxes Protein 2
Length = 89
Score = 31.2 bits (69), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 31/52 (59%), Gaps = 4/52 (7%)
Query: 105 NAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKRHWKPSENMHFAVMD 156
++ K +PT+A+ +L T L +++I++WF +RK ++M AV+D
Sbjct: 30 DSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLR----DSMEQAVLD 77
>pdb|1XWR|A Chain A, Crystal Structure Of The Coliphage Lambda Transcription
Activator Protein Cii
pdb|1XWR|B Chain B, Crystal Structure Of The Coliphage Lambda Transcription
Activator Protein Cii
pdb|1XWR|C Chain C, Crystal Structure Of The Coliphage Lambda Transcription
Activator Protein Cii
pdb|1XWR|D Chain D, Crystal Structure Of The Coliphage Lambda Transcription
Activator Protein Cii
pdb|1ZPQ|A Chain A, Structure Of Bacteriophage Lambda Cii Protein
pdb|1ZPQ|B Chain B, Structure Of Bacteriophage Lambda Cii Protein
pdb|1ZPQ|C Chain C, Structure Of Bacteriophage Lambda Cii Protein
pdb|1ZPQ|D Chain D, Structure Of Bacteriophage Lambda Cii Protein
Length = 97
Score = 30.4 bits (67), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 5/35 (14%)
Query: 122 AESTGLDQKQINNWFINQRKRHWKPSENMHFAVMD 156
AE+ G+D+ QI+ W KR W P +M AV++
Sbjct: 30 AEAVGVDKSQISRW-----KRDWIPKFSMLLAVLE 59
>pdb|1ZS4|A Chain A, Structure Of Bacteriophage Lambda Cii Protein In Complex
With Dna
pdb|1ZS4|B Chain B, Structure Of Bacteriophage Lambda Cii Protein In Complex
With Dna
pdb|1ZS4|C Chain C, Structure Of Bacteriophage Lambda Cii Protein In Complex
With Dna
pdb|1ZS4|D Chain D, Structure Of Bacteriophage Lambda Cii Protein In Complex
With Dna
Length = 83
Score = 30.0 bits (66), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 5/35 (14%)
Query: 122 AESTGLDQKQINNWFINQRKRHWKPSENMHFAVMD 156
AE+ G+D+ QI+ W KR W P +M AV++
Sbjct: 31 AEAVGVDKSQISRW-----KRDWIPKFSMLLAVLE 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 = 30.0 bits (66), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y TE + QL+ GL++ QI WF N+R
Sbjct: 23 YLTERRRQQLSSELGLNEAQIKIWFANKR 51
>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 = 29.6 bits (65), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y TE + QL+ GL++ QI WF N+R
Sbjct: 27 YLTERRRQQLSSELGLNEAQIKIWFKNKR 55
>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 = 29.6 bits (65), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 20/40 (50%)
Query: 111 PYPTEADKLQLAESTGLDQKQINNWFINQRKRHWKPSENM 150
P P K QL E TGL + I WF N+R + K S M
Sbjct: 26 PRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKRSIMM 65
>pdb|3NAU|A Chain A, Crystal Structure Of Zhx2 Hd2 (Zinc-Fingers And Homeoboxes
Protein 2, Homeodomain 2)
pdb|3NAU|B Chain B, Crystal Structure Of Zhx2 Hd2 (Zinc-Fingers And Homeoboxes
Protein 2, Homeodomain 2)
Length = 66
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQRKR 142
+P +A+ +L E TGL + +I WF + R R
Sbjct: 28 FPDDAEVYRLIEVTGLARSEIKKWFSDHRYR 58
>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 = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y TE + QL+ GL++ QI WF N+R
Sbjct: 25 YLTERRRQQLSSELGLNEAQIKIWFQNER 53
>pdb|2HOS|A Chain A, Phage-selected Homeodomain Bound To Unmodified Dna
pdb|2HOS|B Chain B, Phage-selected Homeodomain Bound To Unmodified Dna
pdb|2HOT|A Chain A, Phage Selected Homeodomain Bound To Modified Dna
pdb|2HOT|B Chain B, Phage Selected Homeodomain Bound To Modified Dna
Length = 63
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y TE + QL+ GL++ Q+ WF N R
Sbjct: 28 YLTERRRQQLSSELGLNEAQVKGWFKNMR 56
>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 = 1.2, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y TE + QL+ GL++ QI WF N+R
Sbjct: 25 YLTERRRQQLSSELGLNEAQIKIWFQNKR 53
>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 = 1.2, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y TE + QL+ GL++ QI WF N+R
Sbjct: 27 YLTERRRQQLSSELGLNEAQIKIWFQNKR 55
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
Length = 61
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y TE + QL+ GL++ QI WF N+R
Sbjct: 27 YLTERRRQQLSSELGLNEAQIKIWFQNKR 55
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
Length = 54
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y TE + QL+ GL++ QI WF N+R
Sbjct: 23 YLTERRRQQLSSELGLNEAQIKIWFQNKR 51
>pdb|2P81|A Chain A, Engrailed Homeodomain Helix-Turn-Helix Motif
Length = 44
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y TE + QL+ GL++ QI WF N+R
Sbjct: 10 YLTERRRQQLSSELGLNEAQIKIWFQNKR 38
>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 = 2.3, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y TE + QL+ GL++ QI WF N R
Sbjct: 25 YLTERRRQQLSSELGLNEAQIKIWFQNAR 53
>pdb|3NAR|A Chain A, Crystal Structure Of Zhx1 Hd4 (Zinc-Fingers And Homeoboxes
Protein 1, Homeodomain 4)
pdb|3NAR|B Chain B, Crystal Structure Of Zhx1 Hd4 (Zinc-Fingers And Homeoboxes
Protein 1, Homeodomain 4)
Length = 96
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 2/32 (6%)
Query: 109 KWPYPTEADKLQLAESTGLDQKQINNWFINQR 140
+WP P E DKL A+ +GL + I +WF + R
Sbjct: 48 QWPSPEEYDKL--AKESGLARTDIVSWFGDTR 77
>pdb|2LY9|A Chain A, Solution Nmr Structure Of Homeobox 2 Domain From Human
Zhx1 Repressor, Northeast Structural Genomics Consortium
(Nesg) Target Hr7907f
Length = 74
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/58 (24%), Positives = 34/58 (58%), Gaps = 2/58 (3%)
Query: 97 RQTLLDWWNAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQR--KRHWKPSENMHF 152
++ L + ++ K +P +++ ++L + TGL + +I WF + R +R+ K ++ +H
Sbjct: 15 KEQLAELKVSYLKNQFPHDSEIIRLMKITGLTKGEIKKWFSDTRYNQRNSKSNQCLHL 72
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 109 KWPYPTEADKLQLAESTGLDQKQINNWFINQRKR 142
K Y ++ +LA S GL Q Q+ WF N+R +
Sbjct: 28 KTQYLALPERAELAASLGLTQTQVKIWFQNKRSK 61
>pdb|2XSD|C Chain C, Crystal Structure Of The Dimeric Oct-6 (Pou3f1) Pou Domain
Bound To Palindromic More Dna
Length = 164
Score = 27.7 bits (60), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 106 AHY-KWPYPTEADKLQLAESTGLDQKQINNWFINQRKRHWK 145
+H+ K P P+ + LA+S L+++ + WF N+R++ +
Sbjct: 116 SHFLKCPKPSAHEITGLADSLQLEKEVVRVWFCNRRQKEKR 156
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 81
Score = 27.3 bits (59), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y T ++++A + L ++QI WF N+R
Sbjct: 44 YLTRRRRIEMAHALSLTERQIKIWFQNRR 72
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 27.3 bits (59), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y T ++++A + L ++QI WF N+R
Sbjct: 27 YLTRRRRIEIAHALSLTERQIKIWFQNRR 55
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
Length = 60
Score = 27.3 bits (59), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQRKRHWKPSENM 150
YP + +LA GL + +I WF N+R + W+ E +
Sbjct: 23 YPDVFTREELAMKIGLTEARIQVWFQNRRAK-WRKQEKV 60
>pdb|1AU7|A Chain A, Pit-1 MutantDNA COMPLEX
pdb|1AU7|B Chain B, Pit-1 MutantDNA COMPLEX
Length = 146
Score = 26.9 bits (58), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 9/30 (30%), Positives = 20/30 (66%)
Query: 113 PTEADKLQLAESTGLDQKQINNWFINQRKR 142
P+ + +++AE L+++ + WF N+R+R
Sbjct: 112 PSSQEIMRMAEELNLEKEVVRVWFCNRRQR 141
>pdb|2DA1|A Chain A, Solution Structure Of The First Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 70
Score = 26.9 bits (58), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 113 PTEADKLQLAESTGLDQKQINNWFINQ--RKRHWKPS 147
P+E ++A+ +GL QK I +WF N ++R PS
Sbjct: 32 PSEEQIKEMADKSGLPQKVIKHWFRNTLFKERQSGPS 68
>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 = 26.9 bits (58), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y T ++++A + L ++QI WF N+R
Sbjct: 20 YLTRRRRIEIAHALSLTERQIKIWFQNRR 48
>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 = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y T ++++A + L ++QI WF N+R
Sbjct: 26 YLTRRRRIEIAHALSLTERQIKIWFQNRR 54
>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 = 26.9 bits (58), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y T ++++A + L ++QI WF N+R
Sbjct: 52 YLTRRRRIEIAHALSLTERQIKIWFQNRR 80
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 26.9 bits (58), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 9/52 (17%)
Query: 113 PTEADKLQLAESTGLDQKQINNWFINQR---KRHWKPSENMHFAVMDNLSGP 161
P D QLA+ TGL ++ + WF N R +R+ EN +SGP
Sbjct: 32 PDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNLLRQEN------GGVSGP 77
>pdb|1MH3|A Chain A, Maltose Binding-A1 Homeodomain Protein Chimera, Crystal
Form I
pdb|1MH4|A Chain A, Maltose Binding-A1 Homeodomain Protein Chimera, Crystal
Form Ii
Length = 421
Score = 26.6 bits (57), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 117 DKLQLAESTGLDQKQINNWFINQRKR 142
+K ++A+ G+ Q+ WFIN+R R
Sbjct: 394 EKEEVAKKCGITPLQVRVWFINKRMR 419
>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 = 26.6 bits (57), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 21/41 (51%)
Query: 105 NAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKRHWK 145
A + YP + +LA+ T L + +I WF N+R R K
Sbjct: 35 RAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLRK 75
>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 = 26.6 bits (57), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y T ++++A + L ++QI WF N+R
Sbjct: 26 YLTRRRRIEIAHALCLTERQIKIWFQNRR 54
>pdb|1APL|C Chain C, Crystal Structure Of A Mat-Alpha2 Homeodomain-Operator
Complex Suggests A General Model For Homeodomain-Dna
Interactions
pdb|1APL|D Chain D, Crystal Structure Of A Mat-Alpha2 Homeodomain-Operator
Complex Suggests A General Model For Homeodomain-Dna
Interactions
pdb|1YRN|B Chain B, Crystal Structure Of The Mata1MATALPHA2 HOMEODOMAIN
Heterodimer Bound To Dna
pdb|1AKH|B Chain B, Mat A1ALPHA2DNA TERNARY COMPLEX
Length = 83
Score = 26.6 bits (57), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 23/46 (50%)
Query: 98 QTLLDWWNAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKRH 143
+ L W+ + + PY L ++T L + QI NW N+R++
Sbjct: 15 RILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKE 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 = 26.2 bits (56), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQRKRHWKPSENM 150
YP + +LA GL + +I WF N+R + W+ E +
Sbjct: 30 YPDVFTREELAMKIGLTEARIQVWFQNRRAK-WRKQEKV 67
>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 = 26.2 bits (56), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQR 140
Y T ++ +A + L ++QI WF N+R
Sbjct: 27 YITRRRRIDIANALSLSERQIKIWFQNRR 55
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 26.2 bits (56), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 112 YPTEADKLQLAESTGLDQKQINNWFINQRKRHWKPSE 148
YP + +LA GL + +I WF N+R + W+ E
Sbjct: 23 YPDVFTREELAMKIGLTEARIQVWFQNRRAK-WRKQE 58
>pdb|1K61|A Chain A, Matalpha2 Homeodomain Bound To Dna
pdb|1K61|B Chain B, Matalpha2 Homeodomain Bound To Dna
pdb|1K61|C Chain C, Matalpha2 Homeodomain Bound To Dna
pdb|1K61|D Chain D, Matalpha2 Homeodomain Bound To Dna
Length = 60
Score = 26.2 bits (56), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 23/45 (51%)
Query: 98 QTLLDWWNAHYKWPYPTEADKLQLAESTGLDQKQINNWFINQRKR 142
+ L W+ + + PY L ++T L + QI NW N+R++
Sbjct: 11 RILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRK 55
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
0.318 0.133 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,646,461
Number of Sequences: 62578
Number of extensions: 158571
Number of successful extensions: 406
Number of sequences better than 100.0: 58
Number of HSP's better than 100.0 without gapping: 49
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 356
Number of HSP's gapped (non-prelim): 58
length of query: 166
length of database: 14,973,337
effective HSP length: 92
effective length of query: 74
effective length of database: 9,216,161
effective search space: 681995914
effective search space used: 681995914
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)