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= 029009
(200 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2E1O|A Chain A, Solution Structure Of Rsgi Ruh-028, A Homeobox Domain From
Human Cdna
Length = 70
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 35/51 (68%)
Query: 150 KLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
++R + +Q+ LE+ F+ L+P +++ LA+ L L RQV+ WFQNRRA+
Sbjct: 11 QVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAK 61
>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 = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 32/48 (66%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
++ + A LE+ F++ +LN K+K+ +A++ + P QV VWF N+R R
Sbjct: 372 ISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 419
>pdb|1AKH|A Chain A, Mat A1ALPHA2DNA TERNARY COMPLEX
Length = 61
Score = 44.7 bits (104), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 29/42 (69%)
Query: 159 ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
A LEE F++ +LN K+K+ +A++ + P QV VWF N+R R
Sbjct: 18 AFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 59
>pdb|2LP0|A Chain A, The Solution Structure Of Homeodomain-Protein Complex
Length = 60
Score = 43.5 bits (101), Expect = 8e-05, Method: Composition-based stats.
Identities = 22/53 (41%), Positives = 33/53 (62%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+K+ TK Q+ LE+ F + L ++ +AR LNL RQV++WFQNRR +
Sbjct: 3 KKRCPYTKYQTLELEKEFLFNMYLTRDRRYEVARVLNLTERQVKIWFQNRRMK 55
>pdb|1YRN|A Chain A, Crystal Structure Of The Mata1MATALPHA2 HOMEODOMAIN
Heterodimer Bound To Dna
pdb|1F43|A Chain A, Solution Structure Of The Mata1 Homeodomain
Length = 61
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 29/42 (69%)
Query: 159 ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
A LE+ F++ +LN K+K+ +A++ + P QV VWF N+R R
Sbjct: 18 AFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 59
>pdb|1LE8|A Chain A, Crystal Structure Of The Mata1MATALPHA2-3a Heterodimer
Bound To Dna Complex
Length = 53
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 29/42 (69%)
Query: 159 ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
A LE+ F++ +LN K+K+ +A++ + P QV VWF N+R R
Sbjct: 10 AFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMR 51
>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 = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 36/61 (59%), Gaps = 3/61 (4%)
Query: 143 DGVNARKKLR---LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRA 199
DG+ +K+ R TK Q+ LE F+Q L+ +++ LA + L P QV++WFQN R
Sbjct: 3 DGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRY 62
Query: 200 R 200
+
Sbjct: 63 K 63
>pdb|1QRY|A Chain A, Homeobox Protein Vnd (Ventral Nervous System Defective
Protein)
Length = 80
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 35/61 (57%), Gaps = 3/61 (4%)
Query: 143 DGVNARKKLR---LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRA 199
DG+ +K+ R TK Q+ LE F+Q L+ +++ L + L P QV++WFQN R
Sbjct: 6 DGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLTSLIRLTPTQVKIWFQNHRY 65
Query: 200 R 200
+
Sbjct: 66 K 66
>pdb|1PUF|A Chain A, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 77
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 30/47 (63%)
Query: 154 TKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
TK Q+ LE+ F + L ++ +AR LNL RQV++WFQNRR +
Sbjct: 21 TKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMK 67
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 33/53 (62%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
R + T EQ LE F++ + ++ LAR+++LR +VEVWF+NRRA+
Sbjct: 9 RHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAK 61
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 81
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 35/58 (60%)
Query: 143 DGVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+G+ R + T+ Q+ LE+ F + L +++ +A L+L RQ+++WFQNRR +
Sbjct: 17 NGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMK 74
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 37/64 (57%)
Query: 137 ASDEDEDGVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQN 196
S + +G R++ T+ Q+ LE+ F + L +++ +A L+L RQ+++WFQN
Sbjct: 19 TSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQN 78
Query: 197 RRAR 200
RR +
Sbjct: 79 RRMK 82
>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 = 39.7 bits (91), Expect = 0.001, Method: Composition-based stats.
Identities = 20/57 (35%), Positives = 32/57 (56%)
Query: 144 GVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
G N R + T+ Q LE+ F + ++ ++ LA LNL R +++WFQNRR +
Sbjct: 1 GSNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMK 57
>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor Gbx1
From Homo Sapiens
Length = 71
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 32/57 (56%)
Query: 144 GVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
G + R++ T EQ LE+ F L+ ++ +A L L QV++WFQNRRA+
Sbjct: 5 GKSRRRRTAFTSEQLLELEKEFHCKKYLSLTERSQIAHALKLSEVQVKIWFQNRRAK 61
>pdb|1FTT|A Chain A, Thyroid Transcription Factor 1 Homeodomain (Rattus
Norvegicus)
Length = 68
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 33/53 (62%), Gaps = 2/53 (3%)
Query: 148 RKKLRLTKEQSAL--LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRR 198
R+K R+ Q+ + LE FKQ L+ +++ LA ++L P QV++WFQN R
Sbjct: 2 RRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHR 54
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 31/48 (64%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WFQN+RA+
Sbjct: 10 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAK 57
>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 = 37.7 bits (86), Expect = 0.004, Method: Composition-based stats.
Identities = 20/55 (36%), Positives = 35/55 (63%), Gaps = 2/55 (3%)
Query: 148 RKKLRLTKEQSAL--LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
++K+R Q+ L L++ F++ L+ +Q Q L+ LNL +QV+ WFQN+R +
Sbjct: 3 KQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMK 57
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
Length = 54
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 31/48 (64%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WFQN+RA+
Sbjct: 6 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAK 53
>pdb|3HDD|A Chain A, Engrailed Homeodomain Dna Complex
pdb|3HDD|B Chain B, Engrailed Homeodomain Dna Complex
Length = 60
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 31/48 (64%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WFQN+RA+
Sbjct: 8 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAK 55
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 37.7 bits (86), Expect = 0.004, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 32/53 (60%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
R + T+ Q+ LE+ F + L +++ +A L+L RQ+++WFQNRR +
Sbjct: 5 RGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMK 57
>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 = 37.7 bits (86), Expect = 0.004, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 30/47 (63%)
Query: 154 TKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
T+ Q+ LE+ F + L +++ +A L+L RQ+++WFQNRR +
Sbjct: 4 TRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMK 50
>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 = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/53 (45%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 148 RKKLR--LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRR 198
RKK R T+ Q A LE+ F + L ++ ALAR L + QV+ WFQNRR
Sbjct: 17 RKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRR 69
>pdb|1AU7|A Chain A, Pit-1 MutantDNA COMPLEX
pdb|1AU7|B Chain B, Pit-1 MutantDNA COMPLEX
Length = 146
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 144 GVNARKKLRLTKEQSAL---LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
G N RK+ R T A LE F +HS + ++ +A +LNL V VWF NRR R
Sbjct: 82 GANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQR 141
>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 = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 30/48 (62%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WFQN RA+
Sbjct: 8 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNERAK 55
>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 = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 31/48 (64%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WF+N+RA+
Sbjct: 10 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAK 57
>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 = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 30/47 (63%)
Query: 154 TKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
T+ Q+ LE+ F + L +++ +A L+L RQ+++WFQNRR +
Sbjct: 10 TRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMK 56
>pdb|2KT0|A Chain A, Solution Structure Of Human Stem Cell Transcription Factor
Nanog Homeodomain Fragment
Length = 84
Score = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 37/65 (56%), Gaps = 1/65 (1%)
Query: 137 ASDEDEDGVNARK-KLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQ 195
A ED+ V +K + + Q +L + F++ L+ +Q Q L+ LNL +QV+ WFQ
Sbjct: 12 AKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQ 71
Query: 196 NRRAR 200
N+R +
Sbjct: 72 NQRMK 76
>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 = 36.2 bits (82), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 30/48 (62%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WFQN RA+
Sbjct: 8 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNARAK 55
>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 = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 23/38 (60%)
Query: 161 LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRR 198
LE FKQ L+ ++ LA L L QV++WFQNRR
Sbjct: 17 LERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRR 54
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
Length = 61
Score = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%)
Query: 144 GVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
G R + + EQ A + F ++ L +++Q L+ +L L Q+++WFQN+RA+
Sbjct: 1 GDEKRPRTAFSSEQLARAKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAK 57
>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 = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 30/48 (62%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
T++Q LE+ F + + ++ ++ LA QLNL ++VWFQNRR +
Sbjct: 8 FTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMK 55
>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 = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 29/47 (61%)
Query: 154 TKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
T+ Q+ LE+ F + L +++ +A L L RQ+++WFQNRR +
Sbjct: 10 TRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMK 56
>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 = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 38/66 (57%), Gaps = 5/66 (7%)
Query: 140 EDEDGVNARKKLRLTK-----EQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWF 194
E E G+ ++K R ++ Q LE +F++ + ++ LA++ NL +++VWF
Sbjct: 7 ESEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWF 66
Query: 195 QNRRAR 200
QNRRAR
Sbjct: 67 QNRRAR 72
>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 = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 30/47 (63%)
Query: 154 TKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
T+ Q+ LE+ F + + +++ +A L+L RQ+++WFQNRR +
Sbjct: 11 TRYQTLELEKEFHFNRYITRRRRIDIANALSLSERQIKIWFQNRRMK 57
>pdb|1IG7|A Chain A, Msx-1 HomeodomainDNA COMPLEX STRUCTURE
Length = 58
Score = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 27/48 (56%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
T Q LE F+Q L+ ++ + L+L QV++WFQNRRA+
Sbjct: 7 FTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAK 54
>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 = 35.4 bits (80), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 30/48 (62%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WF N+RA+
Sbjct: 6 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFANKRAK 53
>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 = 35.4 bits (80), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 23/40 (57%)
Query: 161 LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
LE F L+ ++ LA+ L L QV++WFQNRR +
Sbjct: 19 LERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYK 58
>pdb|2DA3|A Chain A, Solution Structure Of The Third Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 80
Score = 35.4 bits (80), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 149 KKLR--LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
K+LR +T EQ +L + + S K +A ++ L+ R V+VWFQN RAR
Sbjct: 18 KRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRAR 71
>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Otx2
Length = 80
Score = 34.7 bits (78), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 32/53 (60%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
R++ T+ Q +LE F + + ++ +A ++NL +V+VWF+NRRA+
Sbjct: 9 RERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAK 61
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant R31lE42L
Length = 67
Score = 34.3 bits (77), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 29/48 (60%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
T+ Q +LE F+ + + LA++LNL ++++WFQNRRA+
Sbjct: 8 FTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAK 55
>pdb|2L7Z|A Chain A, Nmr Structure Of A13 Homedomain
Length = 73
Score = 34.3 bits (77), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 30/53 (56%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+K++ TK Q LE + + + +++ ++ NL RQV +WFQNRR +
Sbjct: 9 KKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVK 61
>pdb|2LD5|A Chain A, Solution Nmr-Derived Complex Structure Of Hoxa13 Dna
Binding Domain Bound To Dna
Length = 67
Score = 34.3 bits (77), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 30/53 (56%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+K++ TK Q LE + + + +++ ++ NL RQV +WFQNRR +
Sbjct: 3 KKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVK 55
>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 = 33.9 bits (76), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 29/48 (60%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+ EQ A L+ F ++ L +++Q L+ +L L QV+ WF+N RA+
Sbjct: 11 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQVKGWFKNMRAK 58
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 33.5 bits (75), Expect = 0.074, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 30/53 (56%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
R + T Q LE++F + + ++ LA ++ L +++VWFQNRRA+
Sbjct: 1 RYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAK 53
>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 = 33.5 bits (75), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 31/57 (54%), Gaps = 5/57 (8%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNP----KQKQALARQLNLRPRQVEVWFQNRRAR 200
RK+ +K+ S +L E F H + NP + K+ LAR+ + QV WF N+R R
Sbjct: 3 RKRRNFSKQASEILNEYFYSHLS-NPYPSEEAKEELARKCGITVSQVSNWFGNKRIR 58
>pdb|4EGC|A Chain A, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 559
Score = 33.5 bits (75), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 155 KEQS-ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
KE+S +L E + + +P++K+ LA L QV WF+NRR R
Sbjct: 502 KEKSRGVLREWYAHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQR 548
>pdb|2P81|A Chain A, Engrailed Homeodomain Helix-Turn-Helix Motif
Length = 44
Score = 33.5 bits (75), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 25/36 (69%)
Query: 165 FKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
F ++ L +++Q L+ +L L Q+++WFQN+RA+
Sbjct: 5 FNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAK 40
>pdb|1E3O|C Chain C, Crystal Structure Of Oct-1 Pou Dimer Bound To More
Length = 160
Score = 33.1 bits (74), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 143 DGVNARKKLRLTKEQS--ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+G++ R+K R + E + LE+SF ++ + +A QLN+ + VWF NRR +
Sbjct: 96 EGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQK 155
>pdb|1HF0|A Chain A, Crystal Structure Of The Dna-Binding Domain Of Oct-1 Bound
To Dna As A Dimer
pdb|1HF0|B Chain B, Crystal Structure Of The Dna-Binding Domain Of Oct-1 Bound
To Dna As A Dimer
pdb|1GT0|C Chain C, Crystal Structure Of A PouHMGDNA TERNARY COMPLEX
Length = 159
Score = 33.1 bits (74), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 143 DGVNARKKLRLTKEQS--ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+G++ R+K R + E + LE+SF ++ ++ +A QLN+ + VWF NRR +
Sbjct: 95 EGLSRRRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFSNRRQK 154
>pdb|1O4X|A Chain A, Ternary Complex Of The Dna Binding Domains Of The Oct1 And
Sox2 Transcription Factors With A 19mer Oligonucleotide
From The Hoxb1 Regulatory Element
Length = 167
Score = 33.1 bits (74), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 143 DGVNARKKLRLTKEQS--ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+G++ R+K R + E + LE+SF ++ ++ +A QLN+ + VWF NRR +
Sbjct: 99 EGLSERRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQK 158
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
Length = 60
Score = 33.1 bits (74), Expect = 0.11, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 29/50 (58%)
Query: 151 LRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+ T Q LE++F + + ++ LA ++ L +++VWFQNRRA+
Sbjct: 4 MTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAK 53
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Barh-Like 1
Length = 80
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 4/63 (6%)
Query: 142 EDGVNARKKLR----LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNR 197
E G A+K R T+ Q LE+ F++ L+ + LA L L QV+ W+QNR
Sbjct: 9 EPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNR 68
Query: 198 RAR 200
R +
Sbjct: 69 RMK 71
>pdb|3A03|A Chain A, Crystal Structure Of Hox11l1 Homeodomain
Length = 56
Score = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 22/38 (57%)
Query: 161 LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRR 198
LE F + L ++ ALA+ L + QV+ WFQNRR
Sbjct: 12 LERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRR 49
>pdb|1ZQ3|P Chain P, Nmr Solution Structure Of The Bicoid Homeodomain Bound To
The Consensus Dna Binding Site Taatcc
Length = 68
Score = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 28/53 (52%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
R + T Q A LE+ F Q L + L+ +L L QV++WF+NRR R
Sbjct: 4 RTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRR 56
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 26/44 (59%)
Query: 157 QSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
Q A L+ F++ L ++ LA L L QV++WFQN+R++
Sbjct: 18 QLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSK 61
>pdb|1CQT|A Chain A, Crystal Structure Of A Ternary Complex Containing An Oca-B
Peptide, The Oct-1 Pou Domain, And An Octamer Element
pdb|1CQT|B Chain B, Crystal Structure Of A Ternary Complex Containing An Oca-B
Peptide, The Oct-1 Pou Domain, And An Octamer Element
Length = 163
Score = 32.7 bits (73), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 143 DGVNARKKLRLTKEQS--ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+G++ R+K R + E + LE+SF ++ ++ +A QLN+ + VWF NRR +
Sbjct: 98 EGLSRRRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQK 157
>pdb|1OCT|C Chain C, Crystal Structure Of The Oct-1 Pou Domain Bound To An
Octamer Site: Dna Recognition With Tethered Dna-Binding
Modules
Length = 156
Score = 32.7 bits (73), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 143 DGVNARKKLRLTKEQS--ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+G++ R+K R + E + LE+SF ++ ++ +A QLN+ + VWF NRR +
Sbjct: 91 EGLSRRRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQK 150
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 32/57 (56%)
Query: 144 GVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
G R++ T +Q LE +F+++ + ++ +A NL +V VWF+NRRA+
Sbjct: 1 GSQRRQRTHFTSQQLQELEATFQRNHYPDMSTREEIAVWTNLTEARVRVWFKNRRAK 57
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Paired Box Protein Pax-6
Length = 80
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 32/53 (60%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
R + T+EQ LE+ F++ + ++ LA +++L +++VWF NRRA+
Sbjct: 9 RNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAK 61
>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 97
Score = 32.3 bits (72), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 32/61 (52%), Gaps = 2/61 (3%)
Query: 142 EDGVNARKKLR--LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRA 199
E G+ + LR T Q LE+ F + L+ ++ +A L L QV++WFQNRR
Sbjct: 28 EPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNRRM 87
Query: 200 R 200
+
Sbjct: 88 K 88
>pdb|2CRA|A Chain A, Solution Structure Of The Homeobox Domain Of Human Homeo
Box B13
Length = 70
Score = 32.3 bits (72), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 144 GVNARKK-LRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
G + RKK + +K Q LE + + + +++ ++ +L RQ+ +WFQNRR +
Sbjct: 4 GSSGRKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVK 61
>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 = 32.0 bits (71), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 32/57 (56%)
Query: 144 GVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
G R++ T +Q LE +F+++ + ++ +A NL +V VWF+NRRA+
Sbjct: 1 GSQRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAK 57
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 32.0 bits (71), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 5/57 (8%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNP----KQKQALARQLNLRPRQVEVWFQNRRAR 200
RK+ K+ + +L E F H + NP + K+ LA++ + QV WF N+R R
Sbjct: 3 RKRRNFNKQATEILNEYFYSHLS-NPYPSEEAKEELAKKCGITVSQVSNWFGNKRIR 58
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
Length = 61
Score = 31.6 bits (70), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
R + T EQ LE +F++ + ++ LA++ L +V+VWF NRRAR
Sbjct: 4 RSRTTFTAEQLEELERAFERTHYPDIYTREELAQRAKLTEARVQVWFSNRRAR 56
>pdb|2DA2|A Chain A, Solution Structure Of The Second Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 70
Score = 30.8 bits (68), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%)
Query: 152 RLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
R T Q +L++ F ++ + + L+ LNL R + VWFQN R +
Sbjct: 13 RFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQK 61
>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 = 30.8 bits (68), Expect = 0.48, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 25/53 (47%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
R + L ++Q L + + + K+ L L PR + VWFQN+R +
Sbjct: 5 RVRTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCK 57
>pdb|1PUF|B Chain B, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 73
Score = 30.8 bits (68), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 5/57 (8%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNP----KQKQALARQLNLRPRQVEVWFQNRRAR 200
RK+ K+ + +L E F H + NP + K+ LA++ + QV WF N+R R
Sbjct: 3 RKRRNFNKQATEILNEYFYSHLS-NPYPSEEAKEELAKKCGITVSQVSNWFGNKRIR 58
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 30.4 bits (67), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 31/57 (54%)
Query: 144 GVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
G R + T Q LE+ F++ + ++ LA + +L +V+VWFQNRRA+
Sbjct: 7 GKKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQVWFQNRRAK 63
>pdb|1LFU|P Chain P, Nmr Solution Stucture Of The Extended Pbx Homeodomain
Bound To Dna
Length = 82
Score = 30.4 bits (67), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 5/57 (8%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNP----KQKQALARQLNLRPRQVEVWFQNRRAR 200
RK+ K+ + +L E F H + NP + K+ LA++ + QV WF N+R R
Sbjct: 4 RKRRNFNKQATEILNEYFYSHLS-NPYPSEEAKEELAKKSGITVSQVSNWFGNKRIR 59
>pdb|3T5P|A Chain A, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|B Chain B, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|C Chain C, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|D Chain D, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|E Chain E, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|F Chain F, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|G Chain G, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|H Chain H, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|I Chain I, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|J Chain J, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|K Chain K, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|L Chain L, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
Length = 306
Score = 30.0 bits (66), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 42 LPKGTCFEPSLSLGLPGEIYPEAATATTKKNSNSIDVNK 80
+P GTC + S +LG+P I EAA TK++ +DV K
Sbjct: 99 IPGGTCNDFSRTLGVPQNI-AEAAKLITKEHVKPVDVAK 136
>pdb|1DU6|A Chain A, Solution Structure Of The Truncated Pbx Homeodomain
Length = 64
Score = 30.0 bits (66), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 5/53 (9%)
Query: 152 RLTKEQSALLEESFKQHSTLNP----KQKQALARQLNLRPRQVEVWFQNRRAR 200
+ K+ + +L E F H + NP + K+ LA++ + QV WF N+R R
Sbjct: 9 HMNKQATEILNEYFYSHLS-NPYPSEEAKEELAKKCGITVSQVSNWFGNKRIR 60
>pdb|3S40|A Chain A, The Crystal Structure Of A Diacylglycerol Kinases From
Bacillus Anthracis Str. Sterne
pdb|3S40|B Chain B, The Crystal Structure Of A Diacylglycerol Kinases From
Bacillus Anthracis Str. Sterne
pdb|3S40|C Chain C, The Crystal Structure Of A Diacylglycerol Kinases From
Bacillus Anthracis Str. Sterne
pdb|3S40|D Chain D, The Crystal Structure Of A Diacylglycerol Kinases From
Bacillus Anthracis Str. Sterne
Length = 304
Score = 30.0 bits (66), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 42 LPKGTCFEPSLSLGLPGEIYPEAATATTKKNSNSIDVNK 80
+P GTC + S +LG+P I EAA TK++ +DV K
Sbjct: 95 IPGGTCNDFSRTLGVPQNI-AEAAKLITKEHVKPVDVAK 132
>pdb|1KI9|A Chain A, Adenylate Kinase From Methanococcus Thermolithotrophicus
pdb|1KI9|B Chain B, Adenylate Kinase From Methanococcus Thermolithotrophicus
pdb|1KI9|C Chain C, Adenylate Kinase From Methanococcus Thermolithotrophicus
Length = 192
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 37/86 (43%), Gaps = 11/86 (12%)
Query: 37 HQQLQLPKGTCFEPSLSLGLPGEIYPEAATATTKKNSNSI-----DVNKGYEESAAAGVA 91
H ++ PKG + P L + + E+ P+ + D + + AG+
Sbjct: 92 HSTIKTPKG--YLPGLPVWVLNELNPDIIIVVETSGDEILIRRLNDETRNRDLETTAGIE 149
Query: 92 EYQILNRQASPHSAVSNSFSSGRVVK 117
E+QI+NR A A++ +G VK
Sbjct: 150 EHQIMNRAA----AMTYGVLTGATVK 171
>pdb|1POG|A Chain A, Solution Structure Of The Oct-1 Pou-Homeo Domain
Determined By Nmr And Restrained Molecular Dynamics
Length = 67
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%)
Query: 161 LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRR 198
LE+SF ++ ++ +A QLN+ + VWF NRR
Sbjct: 22 LEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRR 59
>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 = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 26/40 (65%)
Query: 161 LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
LE++F + + ++ LA ++ L +++VWFQNRRA+
Sbjct: 21 LEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAK 60
>pdb|2QR7|A Chain A, 2.0a X-Ray Structure Of C-Terminal Kinase Domain Of P90
Ribosomal S6 Kinase 2: Se-Met Derivative
Length = 342
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 2/48 (4%)
Query: 74 NSIDVNKGYEESAAAGVAEYQILNRQASPHSAVSNSFSSGRVVKRERD 121
NSI GYE GV Y + R H A + F+ + K +RD
Sbjct: 16 NSIQFTDGYEVKEDIGVGSYSVCKR--CIHKATNXEFAVKIIDKSKRD 61
>pdb|1X2M|A Chain A, Solution Structure Of The Homeobox Domain Of Mouse Lag1
Longevity Assurance Homolog 6
Length = 64
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 29/47 (61%), Gaps = 3/47 (6%)
Query: 154 TKEQSALLEESFKQHSTLNPKQK--QALARQLNLRPRQVEVWFQNRR 198
T + +A+LE+ F T +P +K + L++QL+ R ++ WF+ RR
Sbjct: 8 TAQPNAILEKVFTA-ITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRR 53
>pdb|2QR8|A Chain A, 2.0a X-ray Structure Of C-terminal Kinase Domain Of P90
Ribosomal S6 Kinase 2 (rsk2)
pdb|4D9U|A Chain A, Rsk2 C-Terminal Kinase Domain, (E)-Tert-Butyl
3-(4-Amino-7-(3-
Hydroxypropyl)-5-P-Tolyl-7h-Pyrrolo[2,
3-D]pyrimidin-6-Yl)-2- Cyanoacrylate
pdb|4D9T|A Chain A, Rsk2 C-Terminal Kinase Domain With Inhibitor (E)-Methyl
3-(4-Amino-7-
(3-Hydroxypropyl)-5-P-Tolyl-7h-Pyrrolo[2,
3-D]pyrimidin-6-Yl)-2- Cyanoacrylate
Length = 342
Score = 28.1 bits (61), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 2/48 (4%)
Query: 74 NSIDVNKGYEESAAAGVAEYQILNRQASPHSAVSNSFSSGRVVKRERD 121
NSI GYE GV Y + R H A + F+ + K +RD
Sbjct: 16 NSIQFTDGYEVKEDIGVGSYSVCKR--CIHKATNMEFAVKIIDKSKRD 61
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 12/52 (23%)
Query: 161 LEESFKQHS----------TLNPKQK--QALARQLNLRPRQVEVWFQNRRAR 200
+ SFK H NP K + LA++ L R ++VWFQN RA+
Sbjct: 10 MRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAK 61
>pdb|2WMH|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
In Complex With The H-Disaccharide Blood Group Antigen
Length = 581
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 11 LVLGLGFASAIETTPTNKANNINIVNHQQLQLPKGTCFEPSLSLGLPGEIYPEAATATTK 70
L G G+A + + +N NI +QQ+ LP T SLSL L Y A K
Sbjct: 417 LYEGDGYAQRVGNSWYIYNSNANINKNQQVMLPMYTNNTKSLSLDLTPHTY-----AVVK 471
Query: 71 KNSNSIDV 78
+N N++ +
Sbjct: 472 ENPNNLHI 479
>pdb|2WMG|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
( Sp4gh98) In Complex With The Lewisy Pentasaccharide
Blood Group Antigen
Length = 581
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 11 LVLGLGFASAIETTPTNKANNINIVNHQQLQLPKGTCFEPSLSLGLPGEIYPEAATATTK 70
L G G+A + + +N NI +QQ+ LP T SLSL L Y A K
Sbjct: 417 LYEGDGYAQRVGNSWYIYNSNANINKNQQVMLPMYTNNTKSLSLDLTPHTY-----AVVK 471
Query: 71 KNSNSIDV 78
+N N++ +
Sbjct: 472 ENPNNLHI 479
>pdb|2WMF|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
( Sp4gh98) In Its Native Form
Length = 581
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 11 LVLGLGFASAIETTPTNKANNINIVNHQQLQLPKGTCFEPSLSLGLPGEIYPEAATATTK 70
L G G+A + + +N NI +QQ+ LP T SLSL L Y A K
Sbjct: 417 LYEGDGYAQRVGNSWYIYNSNANINKNQQVMLPMYTNNTKSLSLDLTPHTY-----AVVK 471
Query: 71 KNSNSIDV 78
+N N++ +
Sbjct: 472 ENPNNLHI 479
>pdb|3L1P|A Chain A, Pou Protein:dna Complex
pdb|3L1P|B Chain B, Pou Protein:dna Complex
Length = 155
Score = 27.3 bits (59), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 140 EDEDGVNARKKLRLTKEQSAL--LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNR 197
+ E V ARK+ R + E LE F + + +Q +A QL L V VWF NR
Sbjct: 88 KSETLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNR 147
Query: 198 RAR 200
R +
Sbjct: 148 RQK 150
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
0.311 0.127 0.352
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,122,712
Number of Sequences: 62578
Number of extensions: 175661
Number of successful extensions: 397
Number of sequences better than 100.0: 95
Number of HSP's better than 100.0 without gapping: 75
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 319
Number of HSP's gapped (non-prelim): 98
length of query: 200
length of database: 14,973,337
effective HSP length: 94
effective length of query: 106
effective length of database: 9,091,005
effective search space: 963646530
effective search space used: 963646530
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 49 (23.5 bits)